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MetaCyc Protein: 30S ribosomal subunit

Synonyms: ribosome, small subunit

Species: Escherichia coli K-12 substr. MG1655

Component of: ribosome

Subunit composition of 30S ribosomal subunit = [RpsA][RpsB][RpsC][RpsD][RpsE][RpsF][RpsG][RpsH][RpsI][RpsJ][RpsK][RpsL][RpsM][RpsN][RpsO][RpsP][RpsQ][RpsR][RpsS][RpsT][RpsU][Sra][16S ribosomal RNA (rrsA)]
         30S ribosomal subunit protein S1 = RpsA (extended summary available)
         30S ribosomal subunit protein S2 = RpsB (summary available)
         30S ribosomal subunit protein S3 = RpsC (summary available)
         30S ribosomal subunit protein S4 = RpsD (extended summary available)
         30S ribosomal subunit protein S5 = RpsE (extended summary available)
         30S ribosomal subunit protein S6 = RpsF (extended summary available)
         30S ribosomal subunit protein S7 = RpsG (extended summary available)
         30S ribosomal subunit protein S8 = RpsH (extended summary available)
         30S ribosomal subunit protein S9 = RpsI (extended summary available)
         30S ribosomal subunit protein S10 = RpsJ (extended summary available)
         30S ribosomal subunit protein S11 = RpsK (summary available)
         30S ribosomal subunit protein S12 = RpsL (extended summary available)
         30S ribosomal subunit protein S13 = RpsM (extended summary available)
         30S ribosomal subunit protein S14 = RpsN (summary available)
         30S ribosomal subunit protein S15 = RpsO (extended summary available)
         30S ribosomal subunit protein S16 = RpsP (summary available)
         30S ribosomal subunit protein S17 = RpsQ (summary available)
         30S ribosomal subunit protein S18 = RpsR (extended summary available)
         30S ribosomal subunit protein S19 = RpsS (summary available)
         30S ribosomal subunit protein S20 = RpsT (extended summary available)
         30S ribosomal subunit protein S21 = RpsU (summary available)
         30S ribosomal subunit protein S22 = Sra (summary available)

Gene-Reaction Schematic: ?

Credits:
Created 28-Mar-2006 by Keseler I , SRI International


Subunit of: ribosome

Species: Escherichia coli K-12 substr. MG1655

Subunit composition of ribosome = [(RpsA)(RpsB)(RpsC)(RpsD)(RpsE)(RpsF)(RpsG)(RpsH)(RpsI)(RpsJ)(RpsK)(RpsL)(RpsM)(RpsN)(RpsO)(RpsP)(RpsQ)(RpsR)(RpsS)(RpsT)(RpsU)(Sra)(16S ribosomal RNA (rrsA))][(RplA)(RplB)(RplC)(RplD)(RplE)(RplF)([RplJ][(RplL)2]2)(RplI)(RplJ)(RplK)(RplM)(RplN)(RplO)(RplP)(RplQ)(RplR)(RplS)(RplT)(RplU)(RplV)(RplW)(RplX)(RplY)(RpmA)(RpmB)(RpmC)(RpmD)(RpmE)(RpmF)(RpmG)(RpmH)(RpmI)(RpmJ)(5S ribosomal RNA (rrfA))(23S ribosomal RNA (rrlA))]
         30S ribosomal subunit = (RpsA)(RpsB)(RpsC)(RpsD)(RpsE)(RpsF)(RpsG)(RpsH)(RpsI)(RpsJ)(RpsK)(RpsL)(RpsM)(RpsN)(RpsO)(RpsP)(RpsQ)(RpsR)(RpsS)(RpsT)(RpsU)(Sra)(16S ribosomal RNA (rrsA))
                 30S ribosomal subunit protein S1 = RpsA (extended summary available)
                 30S ribosomal subunit protein S2 = RpsB (summary available)
                 30S ribosomal subunit protein S3 = RpsC (summary available)
                 30S ribosomal subunit protein S4 = RpsD (extended summary available)
                 30S ribosomal subunit protein S5 = RpsE (extended summary available)
                 30S ribosomal subunit protein S6 = RpsF (extended summary available)
                 30S ribosomal subunit protein S7 = RpsG (extended summary available)
                 30S ribosomal subunit protein S8 = RpsH (extended summary available)
                 30S ribosomal subunit protein S9 = RpsI (extended summary available)
                 30S ribosomal subunit protein S10 = RpsJ (extended summary available)
                 30S ribosomal subunit protein S11 = RpsK (summary available)
                 30S ribosomal subunit protein S12 = RpsL (extended summary available)
                 30S ribosomal subunit protein S13 = RpsM (extended summary available)
                 30S ribosomal subunit protein S14 = RpsN (summary available)
                 30S ribosomal subunit protein S15 = RpsO (extended summary available)
                 30S ribosomal subunit protein S16 = RpsP (summary available)
                 30S ribosomal subunit protein S17 = RpsQ (summary available)
                 30S ribosomal subunit protein S18 = RpsR (extended summary available)
                 30S ribosomal subunit protein S19 = RpsS (summary available)
                 30S ribosomal subunit protein S20 = RpsT (extended summary available)
                 30S ribosomal subunit protein S21 = RpsU (summary available)
                 30S ribosomal subunit protein S22 = Sra (summary available)
         50S ribosomal subunit = (RplA)(RplB)(RplC)(RplD)(RplE)(RplF)([RplJ][(RplL)2]2)(RplI)(RplJ)(RplK)(RplM)(RplN)(RplO)(RplP)(RplQ)(RplR)(RplS)(RplT)(RplU)(RplV)(RplW)(RplX)(RplY)(RpmA)(RpmB)(RpmC)(RpmD)(RpmE)(RpmF)(RpmG)(RpmH)(RpmI)(RpmJ)(5S ribosomal RNA (rrfA))(23S ribosomal RNA (rrlA))
                 50S ribosomal subunit protein L1 = RplA (extended summary available)
                 50S ribosomal subunit protein L2 = RplB (summary available)
                 50S ribosomal subunit protein L3 = RplC (summary available)
                 50S ribosomal subunit protein L4 = RplD (extended summary available)
                 50S ribosomal subunit protein L5 = RplE (summary available)
                 50S ribosomal subunit protein L6 = RplF (summary available)
                 50S ribosomal protein complex L8 = (RplJ)([RplL]2)2
                         50S ribosomal subunit protein L10 = RplJ (extended summary available)
                         50S ribosomal subunit protein L7/L12 dimer = (RplL)2
                                 50S ribosomal subunit protein L12 = RplL
                 50S ribosomal subunit protein L9 = RplI (summary available)
                 50S ribosomal subunit protein L10 = RplJ (extended summary available)
                 50S ribosomal subunit protein L11 = RplK (extended summary available)
                 50S ribosomal subunit protein L13 = RplM (extended summary available)
                 50S ribosomal subunit protein L14 = RplN (extended summary available)
                 50S ribosomal subunit protein L15 = RplO (summary available)
                 50S ribosomal subunit protein L16 = RplP (extended summary available)
                 50S ribosomal subunit protein L17 = RplQ (summary available)
                 50S ribosomal subunit protein L18 = RplR (extended summary available)
                 50S ribosomal subunit protein L19 = RplS (extended summary available)
                 50S ribosomal subunit protein L20 = RplT (extended summary available)
                 50S ribosomal subunit protein L21 = RplU (summary available)
                 50S ribosomal subunit protein L22 = RplV (extended summary available)
                 50S ribosomal subunit protein L23 = RplW (extended summary available)
                 50S ribosomal subunit protein L24 = RplX (summary available)
                 50S ribosomal subunit protein L25 = RplY (summary available)
                 50S ribosomal subunit protein L27 = RpmA (extended summary available)
                 50S ribosomal subunit protein L28 = RpmB (summary available)
                 50S ribosomal subunit protein L29 = RpmC (summary available)
                 50S ribosomal subunit protein L30 = RpmD (summary available)
                 50S ribosomal subunit protein L31 = RpmE (summary available)
                 50S ribosomal subunit protein L32 = RpmF (summary available)
                 50S ribosomal subunit protein L33 = RpmG (summary available)
                 50S ribosomal subunit protein L34 = RpmH (summary available)
                 50S ribosomal subunit protein L35 = RpmI (summary available)
                 50S ribosomal subunit protein L36 = RpmJ (summary available)

Credits:
Created 15-Jun-2006 by Keseler I , SRI International


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S1

Synonyms: SsyF, RpsA

Gene: rpsA Accession Numbers: EG10900 (MetaCyc), b0911, ECK0902

Locations: ribosome, membrane, cytosol

Sequence Length: 557 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred from experiment Inferred by computational analysis [GOA01, Sorensen98]
GO:2000766 - negative regulation of cytoplasmic translation Inferred from experiment [Skouv90]
Molecular Function: GO:0003723 - RNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA01, Wower04]
GO:0003729 - mRNA binding Inferred from experiment [Koleva06]
GO:0003735 - structural constituent of ribosome Inferred from experiment Inferred by computational analysis [GOA01, Byrgazov12]
Cellular Component: GO:0005737 - cytoplasm Inferred from experiment [Lasserre06]
GO:0016020 - membrane Inferred from experiment [Lasserre06]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, Subramanian77]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-35884N , EcoliWiki:b0911 , Mint:MINT-1315122 , ModBase:P0AG67 , PR:PRO_000023854 , Pride:P0AG67 , Protein Model Portal:P0AG67 , RefSeq:NP_415431 , SMR:P0AG67 , String:511145.b0911 , UniProt:P0AG67

Relationship Links: InterPro:IN-FAMILY:IPR000110 , InterPro:IN-FAMILY:IPR003029 , InterPro:IN-FAMILY:IPR012340 , InterPro:IN-FAMILY:IPR022967 , PDB:Structure:2BH8 , PDB:Structure:2KHI , PDB:Structure:2KHJ , Pfam:IN-FAMILY:PF00575 , Prints:IN-FAMILY:PR00681 , Prosite:IN-FAMILY:PS50126 , Smart:IN-FAMILY:SM00316

Summary:
The S1 protein is essential in E. coli; it is a component of the ribosome and is likely required for translation of most mRNAs [Sorensen98]. During translation initiation, mRNAs are selected and bound to the ribosome with the help of two components: the conserved 3' end of 16S rRNA is complementary to the Shine-Dalgarno region of the typical mRNA, while the S1 protein binds to the leader sequence of mRNAs, upstream of the Shine-Dalgarno region [Boni91, Komarova02]. S1 promotes RNA strand displacement in vitro [Rajkowitsch07]. The S1 protein is not required for the translation of leaderless mRNAs [Tedin97, Moll02, Byrgazov12]. Association of S1 with the ribosome is unstable [Subramanian77], and the S2 protein is required for binding of S1 to the 30S subunit of the ribosome [Moll02]. The N-terminal domain of S1 is necessary and sufficient for interaction with S2 and for ribosome binding [Byrgazov12].

The S1 protein is the largest of the ribosomal proteins and assumes a complex elongated shape; it is located at the junction of the head, platform, and main body of the 30S subunit [Sengupta01]. RNA binding is associated with structural modification of the S1 protein [Aliprandi08]. NMR structures of domains 4 and 6 have been determined [Salah09].

The translation initiation region of rpsA mRNA, which encodes the S1 protein, lacks a canonical Shine-Dalgarno region, but nevertheless supports high levels of translation [Skorski06]. Expression of S1 is autoregulated; the S1 protein acts as a specific repressor of translation of its own mRNA [Christiansen81, Skouv90]. The N-terminus of S1 is sufficient for repressing rpsA expression [Skouv90]. Supported by various types of evidence including site-directed mutagenesis, footprinting and phylogenetic studies, a model was proposed in which the rpsA leader region folds into three stem-loop structures which enable efficient translation; binding of free S1 protein disturbs the conformation of the rpsA mRNA and thus specifically represses translation [Boni01, Tchufistova03].

S1 proteins carrying a C-terminal truncation due to IS10R insertion in the ssyF29 mutant lack the R4 RNA binding domain and display a growth defect [Boni00]. The growth defect was found to be due to destabilization of the rpsA mRNA [Skorski07].

The S1 protein has been suggested to play a role in trans-translation by binding transfer-messenger RNA (tmRNA) and delivering it to stalled ribosomes [Bordeau02, Karzai01, Wower00a, Wower04, Okada04b]. An alternative model suggests that S1 binds to both mRNA and tmRNA molecules indiscriminately and may not play a direct role in tmRNA-mediated tagging of incompletely translated polypeptides [McGinness04]. Later studies disagree on whether S1 is [Saguy07] or is not [Qi07] required for trans-translation in vitro.

The S1 protein has been reported to bind to RNA polymerase and stimulate transcription of a number of promoters [Sukhodolets03]. S1 activates transcriptional cycling in vitro [Sukhodolets06]. S1 may also inhibit RNase E-dependent mRNA decay [Delvillani11].

ssyF: "suppressor of secY24(Ts)" [Shiba86]

Citations: [Pan11]


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S2

Synonyms: RpsB

Gene: rpsB Accession Numbers: EG10901 (MetaCyc), b0169, ECK0168

Locations: ribosome

Sequence Length: 241 AAs

Molecular Weight: 29.2 kD (experimental) [Georgalis81]

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA01]
Molecular Function: GO:0005515 - protein binding Inferred from experiment [Cooperman81, Butland05]
GO:0008270 - zinc ion binding Inferred from experiment [Katayama02]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73, WittmannLiebold81]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0015935 - small ribosomal subunit Inferred by computational analysis [GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: EcoliWiki:b0169 , PR:PRO_000023855 , Pride:P0A7V0 , Protein Model Portal:P0A7V0 , RefSeq:NP_414711 , SMR:P0A7V0 , String:511145.b0169 , UniProt:P0A7V0

Relationship Links: InterPro:IN-FAMILY:IPR001865 , InterPro:IN-FAMILY:IPR005706 , InterPro:IN-FAMILY:IPR018130 , InterPro:IN-FAMILY:IPR023591 , Panther:IN-FAMILY:PTHR12534 , PDB:Structure:1M5G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00318 , Prints:IN-FAMILY:PR00395 , Prosite:IN-FAMILY:PS00962 , Prosite:IN-FAMILY:PS00963

Summary:
The S2 protein, a component of the 30S subunit of the ribosome, is essential in E. coli [Bollen79]. S2 is required for S1 binding to the ribosome [Moll02]. Overexpression of csdA, a DEAD-box RNA helicase, supresses the defect of a temperature-sensitive allele of rpsB [Toone91] by restoring assembly of both S1 and S2 with the ribosome at the non-permissive temperature [Moll02].

Expression of S2 is autoregulated, involving conserved elements located in the 5' UTR of the rpsB-tsf mRNA. Regulation may also involve the S1 protein [Aseev08].

Purified S2 protein binds to inorganic polyphosphate (polyP). In the presence of polyP, S2 forms a complex with the Lon protease and is degraded by it [Kuroda01, Nishii05]. S2 was also shown to crosslink to IF3 [Cooperman81].

A low-resolution cryo-electron microscopy map of the ribosome containing S2 has been analyzed [Gao03a].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S3

Synonyms: RpsC

Gene: rpsC Accession Numbers: EG10902 (MetaCyc), b3314, ECK3301

Locations: cytosol, ribosome

Sequence Length: 233 AAs

GO Terms:

Biological Process: GO:0000737 - DNA catabolic process, endonucleolytic Inferred by computational analysis [Gaudet10]
GO:0002181 - cytoplasmic translation Inferred by computational analysis [Gaudet10]
GO:0006281 - DNA repair Inferred by computational analysis [Gaudet10]
GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
GO:0042981 - regulation of apoptotic process Inferred by computational analysis [Gaudet10]
Molecular Function: GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0003729 - mRNA binding Inferred by computational analysis [GOA06]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01, Gaudet10]
GO:0003906 - DNA-(apurinic or apyrimidinic site) lyase activity Inferred by computational analysis [Gaudet10]
GO:0019843 - rRNA binding Inferred by computational analysis [UniProtGOA11, GOA06]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005634 - nucleus Inferred by computational analysis [Gaudet10]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0015935 - small ribosomal subunit Inferred by computational analysis [GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-35807N , EcoliWiki:b3314 , Mint:MINT-6478122 , PR:PRO_000023856 , Pride:P0A7V3 , Protein Model Portal:P0A7V3 , RefSeq:NP_417773 , SMR:P0A7V3 , String:511145.b3314 , UniProt:P0A7V3

Relationship Links: InterPro:IN-FAMILY:IPR001351 , InterPro:IN-FAMILY:IPR004044 , InterPro:IN-FAMILY:IPR004087 , InterPro:IN-FAMILY:IPR005704 , InterPro:IN-FAMILY:IPR009019 , InterPro:IN-FAMILY:IPR015946 , InterPro:IN-FAMILY:IPR018280 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00189 , Pfam:IN-FAMILY:PF07650 , Prosite:IN-FAMILY:PS00548 , Prosite:IN-FAMILY:PS50823 , Smart:IN-FAMILY:SM00322

Summary:
The S3 protein, a component of the small subunit of the ribosome, is surface-accessible and located on the head of the 30S subunit [Breitenreuter84]. It can be crosslinked to rRNA [Urlaub95] and nascent peptides [Choi98a] as well as to IF3 [Cooperman81]. S3 is the main target of modification by reaction with pyridoxal phosphate [Ohsawa83].

The ribosome was found to have mRNA helicase activity, and mutations in the S3 and S4 subunits impair this activity [Takyar05].

A low-resolution cryo-electron microscopy map of the ribosome containing S3 has been analyzed [Gao03a].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S4

Synonyms: RamA, RpsD

Gene: rpsD Accession Numbers: EG10903 (MetaCyc), b3296, ECK3283

Locations: cytosol, ribosome

Sequence Length: 206 AAs

GO Terms:

Biological Process: GO:0031564 - transcription antitermination Inferred from experiment [Torres01a]
GO:0045947 - negative regulation of translational initiation Inferred from experiment [Yates80a]
GO:0006351 - transcription, DNA-templated Inferred by computational analysis [UniProtGOA11]
GO:0006353 - DNA-templated transcription, termination Inferred by computational analysis [UniProtGOA11]
GO:0006355 - regulation of transcription, DNA-templated Inferred by computational analysis [UniProtGOA11]
GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
GO:0006417 - regulation of translation Inferred by computational analysis [UniProtGOA11]
GO:0046677 - response to antibiotic Inferred by computational analysis [UniProtGOA11]
Molecular Function: GO:0000900 - translation repressor activity, nucleic acid binding Inferred from experiment [Tang90]
GO:0005515 - protein binding Inferred from experiment [Torres01a]
GO:0019843 - rRNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA06, GOA01, Mizushima70]
GO:0048027 - mRNA 5'-UTR binding Inferred from experiment [Deckman87]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11]
GO:0015935 - small ribosomal subunit Inferred by computational analysis [GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-35794N , EcoliWiki:b3296 , Mint:MINT-6478162 , PR:PRO_000023857 , Pride:P0A7V8 , Protein Model Portal:P0A7V8 , RefSeq:NP_417755 , SMR:P0A7V8 , String:511145.b3296 , UniProt:P0A7V8

Relationship Links: InterPro:IN-FAMILY:IPR001912 , InterPro:IN-FAMILY:IPR002942 , InterPro:IN-FAMILY:IPR005709 , InterPro:IN-FAMILY:IPR018079 , InterPro:IN-FAMILY:IPR022801 , Panther:IN-FAMILY:PTHR11831 , PDB:Structure:1EG0 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00163 , Pfam:IN-FAMILY:PF01479 , Prosite:IN-FAMILY:PS00632 , Prosite:IN-FAMILY:PS50889 , Smart:IN-FAMILY:SM00363

Summary:
The S4 protein, a component of the 30S subunit of the ribosome, functions in the assembly of the 30S ribosomal subunit, the mRNA helicase activity of the ribosome, the regulation of translation of a subset of ribosomal proteins, and transcription antitermination of rRNA operons.

S4 interacts directly with helical elements at the 5' domain of the 16S rRNA [Stern86, Powers95, Vartikar89, Bellur09, Ramaswamy09]. The N-terminal domain of unbound S4 is dynamically disordered, which is exploited to initiate S4 binding to helix 16 in the unfolded five-way junction of 16S rRNA [Chen10d]. S4 binding stabilizes the five-way junction and the helix 18 pseudoknot; both become tightly folded within the first minute of S4 binding. Other components of the five-way junction require more time and perhaps other 30S proteins to achieve their final conformation [Mayerle11]. The ability of both S4 and S7 to bind 16S rRNA by themselves indicates that they function as initiator proteins for the assembly of the 30S subunit of the ribosome. The S20, S16, S15, S6, and S8 subunits appear to depend on S4 for assembly [Nowotny88a].

The S4 protein is involved in the regulation of translation of the other ribosomal proteins encoded by the α operon, RpsM (S13), RpsK (S11), RplQ (L17) and S4 itself [Yates80a, Thomas87a, JinksRobertson82]. The α operon leader region is required for translational repression by S4 [Thomas87a]; S4 specifically interacts with a double pseudoknot structure which overlaps with the ribosome binding site and initiation codon for RpsM [Deckman85, Deckman87, Deckman87a, Tang89, Tang90, Gluick95]. There may be a second binding site for S4 upstream of the RplQ open reading frame [Meek84]. The same protein domain appears to be responsible for both mRNA and rRNA binding [Baker95a, Conrad87].

S4 can also act as a general transcription antitermination factor similar to NusA; it associates with RNA polymerase and is involved in rRNA operon antitermination [Torres01a].

S4 influences translational fidelity [Topisirovic77]. Certain mutations in rpsD confer a "ribosomal ambiguity" (ram) phenotype, which is characterized by decreased growth rate, increased streptomycin sensitivity, and increased errors in translation [Zimmermann71, Andersson83a, Andersson82a, Olsson79]. Ribosomes containing the S4 rpsD12 allele display the ram phenotype; these ribosomes appear to exploit only the initial phase of tRNA selection, thus reducing discrimination against near-cognate aa-tRNAs [Zaher10]. Cells carrying the rpsD14 allele have a mutator phenotype [Balashov03]. The ribosome was found to have mRNA helicase activity, and mutations in the S3 and S4 subunits impair this activity [Takyar05].

ramA: "ribosomal ambiguity"

Citations: [Bedwell85]


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S5

Synonyms: Spc, Eps, SpcA, RpsE

Gene: rpsE Accession Numbers: EG10904 (MetaCyc), b3303, ECK3290

Locations: cytosol, ribosome

Sequence Length: 167 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
GO:0046677 - response to antibiotic Inferred by computational analysis [UniProtGOA11]
Molecular Function: GO:0005515 - protein binding Inferred from experiment [Rajagopala14, Arifuzzaman06, Butland05]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA06, GOA01]
GO:0019843 - rRNA binding Inferred by computational analysis [UniProtGOA11, GOA06]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0015935 - small ribosomal subunit Inferred by computational analysis [GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11, GOA06]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: EcoliWiki:b3303 , Mint:MINT-6478202 , ModBase:P0A7W1 , PR:PRO_000023858 , Pride:P0A7W1 , Protein Model Portal:P0A7W1 , RefSeq:NP_417762 , SMR:P0A7W1 , String:511145.b3303 , UniProt:P0A7W1

Relationship Links: InterPro:IN-FAMILY:IPR000851 , InterPro:IN-FAMILY:IPR005324 , InterPro:IN-FAMILY:IPR005712 , InterPro:IN-FAMILY:IPR013810 , InterPro:IN-FAMILY:IPR014720 , InterPro:IN-FAMILY:IPR014721 , InterPro:IN-FAMILY:IPR018192 , InterPro:IN-FAMILY:IPR020568 , Panther:IN-FAMILY:PTHR13718 , PDB:Structure:1EG0 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00333 , Pfam:IN-FAMILY:PF03719 , Prosite:IN-FAMILY:PS00585 , Prosite:IN-FAMILY:PS50881

Summary:
The S5 protein is a component of the 30S subunit of the ribosome. It was suggested that S5 is positioned to have access to the interface between the 30S and 50S subunits of the ribosome [Culver99].

The N-terminal half of S5 contains the sites of mutations that confer resistance to spectinomycin [Piepersberg75, Dekio69, DeWilde73] and binds non-specifically to helix 34 of the 16S rRNA [Heilek96, Stern88]. S5 may be involved in modulating the conformation of the 16S rRNA [Lodmell97]. S5 can be cross-linked to mRNA [RinkeAppel91] and tRNA [Graifer89].

S5 influences translational fidelity. Certain mutations in rpsE confer a "ribosomal ambiguity" phenotype, which is characterized by decreased growth rate, increased streptomycin sensitivity, and increased errors in translation [Ito73, Hasenbank73].

The S5 protein is acetylated at the N-terminus [WittmannLiebold78, Arnold99]; mutants in the alanine acetyltransferase enzyme, RimJ, are temperature sensitive [Cumberlidge79, Yoshikawa87]. N-terminal acetylation of S5 and S18 correlates with correct folding of the platform and central pseudoknot domains of 16S rRNA [Clatterbuck13].

spcA: "spectinomycin"


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S6

Synonyms: SdgH, RpsF

Gene: rpsF Accession Numbers: EG10905 (MetaCyc), b4200, ECK4196

Locations: cytosol, ribosome

Sequence Length: 131 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0005515 - protein binding Inferred from experiment [Zheng11, Hauser14, Rajagopala14]
GO:0048027 - mRNA 5'-UTR binding Inferred from experiment [Matelska13]
GO:0070181 - small ribosomal subunit rRNA binding Inferred from experiment [Gregory84]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
GO:0019843 - rRNA binding Inferred by computational analysis [UniProtGOA11, GOA06, GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08, LopezCampistrou05]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-10782N , EcoliWiki:b4200 , Mint:MINT-1279331 , ModBase:P02358 , PR:PRO_000023859 , Pride:P02358 , Protein Model Portal:P02358 , RefSeq:NP_418621 , SMR:P02358 , String:511145.b4200 , UniProt:P02358

Relationship Links: InterPro:IN-FAMILY:IPR000529 , InterPro:IN-FAMILY:IPR014717 , InterPro:IN-FAMILY:IPR020814 , InterPro:IN-FAMILY:IPR020815 , PDB:Structure:1EG0 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IY8 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF01250 , Prosite:IN-FAMILY:PS01048

Summary:
The S6 protein is a component of the 30S subunit of the ribosome. S6 interacts with the central domain of 16S rRNA [Gregory84, Stern88].

The S6 protein contains glutamate residues at the C-terminus, only two of which are encoded by the rpsF gene [Reeh79, Schnier86]; up to four additional glutamate residues are added post-translationally by the RimK enzyme [Kang89]. This form of S6 accumulates when the soxR regulon is activated [Greenberg90]. In bacteriophage T7-infected cells, S6 is phosphorylated [Robertson94].

Expression analysis of rpsFp indicates that it may be autoregulated by one or more of its operon components [Nakayashiki13]. Coexpressed S6:S18 were found to bind to the rpsF 5'-UTR in a region with structural similarity to their binding site in 16S rRNA. S6 together with S18 may thus be responsible for autoregulation of the rpsF-priB-rpsR-rplI operon [Matelska13].

A class of mutations in rpsF supresses the temperature-sensitive growth defect of certain dnaG alleles [Britton97]. The rpsF292 allele, which introduces a stop codon in place of Glu98, is an effective suppressor of ΔrecG. The effect is due to both elimination of RpsF and lower expression of PriB [Mahdi12]. Both rimK and rpsF deletion mutants reduce the basal level of SOS response and increase resistance to hydroxyurea [Nakayashiki13].

SdgH: "supressor of dnaG" [Britton97]

Review: [Nesterchuk11]

Citations: [Mulder10, Tang14]


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S7

Synonyms: RpsG

Gene: rpsG Accession Numbers: EG10906 (MetaCyc), b3341, ECK3328

Locations: cytosol, ribosome, membrane

Sequence Length: 179 AAs

GO Terms:

Biological Process: GO:0000028 - ribosomal small subunit assembly Inferred from experiment [Nowotny88a]
GO:0017148 - negative regulation of translation Inferred from experiment [Dean81]
GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0003729 - mRNA binding Inferred from experiment [Saito94a, Golovin06]
GO:0005515 - protein binding Inferred from experiment [Rajagopala14, Lasserre06, Butland05, MartinezHackert09]
GO:0019843 - rRNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA06, Wower83]
GO:0000049 - tRNA binding Inferred by computational analysis [UniProtGOA11, GOA06]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0016020 - membrane Inferred from experiment [Lasserre06]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, Lasserre06]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11]
GO:0015935 - small ribosomal subunit Inferred by computational analysis [GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-10783N , EcoliWiki:b3341 , Mint:MINT-1236482 , ModBase:P02359 , PR:PRO_000023860 , Pride:P02359 , Protein Model Portal:P02359 , RefSeq:NP_417800 , SMR:P02359 , String:511145.b3341 , UniProt:P02359

Relationship Links: InterPro:IN-FAMILY:IPR000235 , InterPro:IN-FAMILY:IPR005717 , InterPro:IN-FAMILY:IPR020606 , InterPro:IN-FAMILY:IPR023798 , Panther:IN-FAMILY:PTHR11205 , Panther:IN-FAMILY:PTHR11205:SF13 , PDB:Structure:1EG0 , PDB:Structure:1M5G , PDB:Structure:1ML5 , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00177 , Prosite:IN-FAMILY:PS00052

Summary:
The S7 protein is a component of the 30S subunit of the ribosome.

S7 binds to 16S rRNA [Ehresmann76, Wower83, Hajnsdorf86, Chiaruttini86, Wiener87, Wiener88, Urlaub95, Dragon93, Dragon94, Robert00]. The ability of both S4 and S7 to bind 16S rRNA by themselves indicates that they function as initiator proteins for the assembly of the 30S subunit of the ribosome. The S9, S13, S19, S10, S14, and S3 subunits depend on S7 for assembly [Nowotny88a, Grondek04, Bunner10]. The K35 residue of S7 appears to be required for efficient assembly [Fredrick00].

S7 crosslinks to the anticodon loop of tRNAs, indicating its location close to the decoding site of the ribosome [Podkowinski89, Rosen97]. S7 also crosslinks to mRNA [Stade89, Dontsova91]; the C-terminal region of S7 is the predominant crosslinking site [Greuer99]. S7 was also shown to crosslink to IF3 [MacKeen80, Cooperman81, Boileau83]. Footprinting of IF3 on 16S rRNA and modelling of IF3-30S subunit interactions suggested that IF3 is located near S7 and S11 [Dallas01]. S7 and S11 functionally interact [Robert03]. In addition, S7 is the major crosslinking target of the 4.5S RNA component of the signal recognition particle [Gu05].

S7 is a translational feedback repressor [Dean81], regulating the synthesis of itself and the other gene products encoded together with S7 in an operon: S12, S7, EF-G and possibly EF-Tu [Saito94b]. Independently expressed S7 is not subject to translational autoregulation; therefore, regulation of S7 is achieved through regulation of translation of S12 and translational coupling with S12 [Saito94b]. Two regions located between rpsL and rpsG interact with S7 and are important for S7-mediated repression [Saito94a, Golovin06, Surdina08]. The same determinants of S7 that are responsible for binding 16S rRNA are also involved in binding to its own mRNA [Robert01].

The antibiotic puromycin can be crosslinked to an amino-terminal peptide of S7 [Bischof94]. A deletion that truncates the β-hairpin of S7, ΔR77-Y84, increases ribosomal frameshifting, indicating that the ribosomal E (exit) site plays a role in reading frame maintenance [Devaraj09].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S8

Synonyms: RpsH

Gene: rpsH Accession Numbers: EG10907 (MetaCyc), b3306, ECK3293

Locations: cytosol, ribosome

Sequence Length: 130 AAs

Molecular Weight: 15.8 kD (experimental) [Tindall81]

GO Terms:

Biological Process: GO:0043488 - regulation of mRNA stability Inferred from experiment [Mattheakis89]
GO:0006412 - translation Inferred by computational analysis [GOA01]
GO:0006417 - regulation of translation Inferred by computational analysis [UniProtGOA11]
Molecular Function: GO:0019843 - rRNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, Mizushima70]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation
regulation type of regulation posttranscriptional

Unification Links: DIP:DIP-47901N , EcoliWiki:b3306 , Mint:MINT-1318565 , ModBase:P0A7W7 , PR:PRO_000023861 , Pride:P0A7W7 , Protein Model Portal:P0A7W7 , RefSeq:NP_417765 , SMR:P0A7W7 , String:511145.b3306 , UniProt:P0A7W7

Relationship Links: InterPro:IN-FAMILY:IPR000630 , Panther:IN-FAMILY:PTHR11758 , PDB:Structure:1EG0 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1S03 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00410 , Prosite:IN-FAMILY:PS00053

Summary:
The S8 protein is a component of the 30S subunit of the ribosome and also functions in the post-transcriptional regulation of the ribosomal protein genes encoded in the spc operon.

The S8 protein binds to 16S rRNA [Schaup73] in the absence of other ribosomal proteins [Schaup70]. S8 binding is not absolutely required for assembly of the 30S ribosomal subunit platform, but it influences the organization of the 16S rRNA central domain [Jagannathan03]. Sites within 16S rRNA where S8 interacts have been determined [Wower83, Gregory84, Gregory86, Wiener88, Mougel93, Wu94], and the secondary and tertiary structure of the binding region has been investigated [Mougel87, Allmang94, Kalurachchi97, Kalurachchi98]. The unique cysteine residue present in S8 is essential for 16S rRNA binding [Mougel86], although it may not be involved in RNA recognition [Wu93a]. Other sequence determinants important for 16S rRNA binding have been investigated [Wower92, Wu93a, Moine97]. The affinity of S8 for 16S rRNA and thus the stability of the complex is correlated with the optimal growth temperature of various organisms [Gruber03].

In addition to its function in the ribosome, the ribosomal protein S8 binds to a site overlapping and sequestering the L5 initiation codon in the spc operon mRNA. It thereby represses initiation of L5 (rplE) translation [Thomas87a, Dean81a, Yates80a], and translational coupling ensures the coordinated regulation of genes downstream of rplE [Mattheakis88]. However, it is not known whether S8 also regulates the translation of the last two open reading frames of the spc operon, secY and rpmJ. Expression of the first two genes of the spc operon, encoding ribosomal proteins L14 and L24, is regulated by the same interaction of S8 with spc operon mRNA via "retroregulation" [Mattheakis89]. Processing of spc mRNA was shown to be stimulated by overproduction of S8 [Mattheakis88], and this effect is dependent on polynucleotide phosphorylase and RNase II [Mattheakis89].

The target site on mRNA for S8 feedback regulation shows structural similarity to the region of 16S rRNA that binds S8 [Olins81a, Gregory88, Cerretti88]. The affinity of S8 for its mRNA binding site is approximately 5-fold lower than for its rRNA binding site due to differences in the secondary structure of the sites [Wu94]. A crystal structure of the complex between S8 and spc operon mRNA has been determined at 2.8 Å resolution and shows similarity to the structure of the S8/helix 21 complex in the small ribosomal subunit [Merianos04].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S9

Synonyms: RpsI

Gene: rpsI Accession Numbers: EG10908 (MetaCyc), b3230, ECK3219

Locations: cytosol, ribosome

Sequence Length: 130 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA01]
Molecular Function: GO:0000049 - tRNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-35799N , EcoliWiki:b3230 , Mint:MINT-1290939 , PR:PRO_000023862 , Pride:P0A7X3 , Protein Model Portal:P0A7X3 , RefSeq:NP_417697 , SMR:P0A7X3 , String:511145.b3230 , UniProt:P0A7X3

Relationship Links: InterPro:IN-FAMILY:IPR000754 , InterPro:IN-FAMILY:IPR014721 , InterPro:IN-FAMILY:IPR020568 , InterPro:IN-FAMILY:IPR020574 , InterPro:IN-FAMILY:IPR023035 , Panther:IN-FAMILY:PTHR21569 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00380 , Prosite:IN-FAMILY:PS00360

Summary:
The S9 protein is a component of the 30S subunit of the ribosome.

S9 was shown to crosslink to domains 3 and 4 of 16S rRNA [Hajnsdorf86, Chiaruttini86] and increases protection against ribunuclease digestion of the hairpin loop 41 near the 3' terminus of 16S rRNA by a mixture containing S7, S14, and S19 [Wiener87]. The effect of S9 may be dependent on the presence of S14 [Wiener88]. S7 is required for and accelerates binding of S9 to the 16S rRNA [Bunner10]. S9 crosslinks to tRNA at the P site of the ribosome and weakly to tRNA at the A site [Osswald95]. The assembly cofactors Era, RimM and RimP accelerate the binding rate of S9 during 30S assembly [Bunner10a].

Structural modelling suggested that the C-terminal region of S9 interacts with the P-site tRNA. Studies with rpsI mutants lacking this region show that the C-terminal tail is not essential for the function of S9, but such mutants have slower growth rates. In vitro, deletion of the C-terminal tail of S9 affects binding of tRNAs with anticodon stem sequences that are most divergent from initiator tRNAs [Hoang04]. Deletion of three C terminal amino acids of S9 results in altered translation initiation from various codons [Arora13].

S9 is one of the subunits required for the ribosome-dependent GTPase activity of EF-G [Marsh73]. A decreased amount of S9 in the cell may cause a defect in ribosome maturation [Kaczanowska04].

An rpsI null mutant is viable, but has a slow growth phenotype [Bubunenko07, Shoji11].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S10

Synonyms: NusE, RpsJ

Gene: rpsJ Accession Numbers: EG10909 (MetaCyc), b3321, ECK3308

Locations: cytosol, ribosome

Sequence Length: 103 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0005515 - protein binding Inferred from experiment [Zheng11, Arifuzzaman06, Mason92, Butland05]
GO:0000049 - tRNA binding Inferred by computational analysis [GOA06]
GO:0003723 - RNA binding Inferred by computational analysis [GOA01]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, Hardy69]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation
regulation type of regulation transcriptional level

Unification Links: DIP:DIP-35797N , EcoliWiki:b3321 , Mint:MINT-1283940 , ModBase:P0A7R5 , PR:PRO_000023863 , Pride:P0A7R5 , Protein Model Portal:P0A7R5 , RefSeq:NP_417780 , SMR:P0A7R5 , String:511145.b3321 , UniProt:P0A7R5

Relationship Links: InterPro:IN-FAMILY:IPR001848 , InterPro:IN-FAMILY:IPR018268 , InterPro:IN-FAMILY:IPR027486 , Panther:IN-FAMILY:PTHR11700 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2KVQ , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3D3B , PDB:Structure:3D3C , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IMQ , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00338 , Prints:IN-FAMILY:PR00971 , Prosite:IN-FAMILY:PS00361

Summary:
The S10 protein (NusE) is a component of the 30S subunit of the ribosome and, in a complex with NusB, plays a role in transcription antitermination.

S10 can be crosslinked to tRNA in the ribosomal P site [Riehl82] and may contact 16S rRNA in two separate domains [Powers88].

S10 may be directly involved in the regulation of transcription termination [Das84, Warren84, Das85]. The nusE71 mutation in the rpsJ gene was first shown to affect regulation of transcription termination by the bacteriophage λ antiterminator N [Friedman81]. The nusE71 allele is a point mutation, changing a single amino acid, Ala86, to Asp. It is the only rpsJ allele known to have a Nus- phenotype [Court95]. The nusE71 mutation may be specific for λ antitermination; it appears to have no effect on boxA-mediated increase in the rate of transcription of rrn operons [Zellars99].

S10 is also suggested to function in rrn antitermination. S10 can form a heterodimer with NusB [Mason92]; the heterodimer can bind to the rrn boxA sequence [Nodwell93, Luttgen02]. Detailed analysis of the assembly pathway for the boxA-containing core antitermination complex has been performed [Greive05]. S10 was shown to bind RNA non-specifically and increases the affinity of NusB for boxA RNA [Greive05].

NusE: "N utilization substance E"

Reviews: [Squires00, Weisberg08]


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S11

Synonyms: RpsK

Gene: rpsK Accession Numbers: EG10910 (MetaCyc), b3297, ECK3284

Locations: cytosol, ribosome

Sequence Length: 129 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0003735 - structural constituent of ribosome Inferred from experiment Inferred by computational analysis [GOA01, Hardy69]
GO:0070181 - small ribosomal subunit rRNA binding Inferred from experiment [Powers95a, Chiaruttini89]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0019843 - rRNA binding Inferred by computational analysis [UniProtGOA11, GOA06]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, Hardy69]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-47838N , EcoliWiki:b3297 , Mint:MINT-1232137 , PR:PRO_000023864 , Pride:P0A7R9 , Protein Model Portal:P0A7R9 , RefSeq:NP_417756 , SMR:P0A7R9 , String:511145.b3297 , UniProt:P0A7R9

Relationship Links: InterPro:IN-FAMILY:IPR001971 , InterPro:IN-FAMILY:IPR018102 , InterPro:IN-FAMILY:IPR019981 , Panther:IN-FAMILY:PTHR11759 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00411 , Prosite:IN-FAMILY:PS00054

Summary:
The S11 protein is a component of the 30S subunit of the ribosome.

S11 is a component of the ribosomal P site [Stern88] and crosslinks to a nucleotide in the D loop of tRNA [Rosen97]. S11 was also shown to crosslink to IF3 [MacKeen80, Cooperman81, Boileau83]. Footprinting of IF3 on 16S rRNA and modelling of IF3-30S subunit interactions suggested that IF3 is located near S7 and S11 [Dallas01].

S11, S6, and S18 interact cooperatively with two loop regions of 16S rRNA [Stern88]. S11 and S7 functionally interact [Robert03].

S11 is methylated at the amino terminal alanine residue [Arnold99] and contains isoaspartate [David99].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S12

Synonyms: StrA, AsuB, RpsL

Gene: rpsL Accession Numbers: EG10911 (MetaCyc), b3342, ECK3329

Locations: cytosol, ribosome

Sequence Length: 124 AAs

GO Terms:

Biological Process: GO:0000372 - Group I intron splicing Inferred from experiment [Coetzee94]
GO:0006412 - translation Inferred from experiment Inferred by computational analysis [GOA06, GOA01, Zengel77]
GO:0033120 - positive regulation of RNA splicing Inferred from experiment [Coetzee94]
GO:0034337 - RNA folding Inferred from experiment [Coetzee94]
GO:0046677 - response to antibiotic Inferred by computational analysis [UniProtGOA11]
Molecular Function: GO:0005515 - protein binding Inferred from experiment [Zheng11, Hauser14]
GO:0019843 - rRNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA06, Stern88]
GO:0034336 - misfolded RNA binding Inferred from experiment [Coetzee94]
GO:0000049 - tRNA binding Inferred by computational analysis [UniProtGOA11, GOA06]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08, Zhang07]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73, Kaltschmidt70]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0015935 - small ribosomal subunit Inferred by computational analysis [GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-35806N , DisProt:DP00145 , EcoliWiki:b3342 , PR:PRO_000023865 , Pride:P0A7S3 , Protein Model Portal:P0A7S3 , RefSeq:NP_417801 , SMR:P0A7S3 , String:511145.b3342 , UniProt:P0A7S3

Relationship Links: InterPro:IN-FAMILY:IPR005679 , InterPro:IN-FAMILY:IPR006032 , InterPro:IN-FAMILY:IPR012340 , Panther:IN-FAMILY:PTHR11652 , PDB:Structure:1M5G , PDB:Structure:1MJ1 , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:1ZN1 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DEG , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3EP2 , PDB:Structure:3EQ3 , PDB:Structure:3EQ4 , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0D , PDB:Structure:3J0E , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00164 , Prints:IN-FAMILY:PR01034 , Prosite:IN-FAMILY:PS00055

Summary:
The S12 protein is a component of the 30S subunit of the ribosome and plays a role in translational accuracy.

Certain mutations in S12 cause streptomycin resistance [Ozaki69]. The streptomycin resistance phenotype is recessive [LEDERBERG51]. Some mutations causing streptomycin resistance also lead to higher translational accuracy [Yates77, Bouadloun83] and a lower rate of protein chain elongation [Zengel77]. The mutations appear to exert their effect by altering the structure of 16S rRNA [Allen89a]. Both S12 and S5 appear to facilitate changes in 16S rRNA structure during translation [Lodmell97]. S12 influences the selection of aminoacyl-tRNAs and discrimination both before and after GTP hydrolysis [Yates79], which may be explained by its influence on P site binding of charged tRNAs [Karimi96]. S12 and S13 are also thought to be involved in maintenance of the pre-translocation state of the ribosome [Cukras03]. The kinetic properties of ribosomes with various mutant forms of S12 have been investigated [Bilgin92].

S12 was shown to crosslink to IF3 [Hawley74, MacKeen80, Cooperman81], IF1 [Boileau83] and EF-G [Girshovich81] and protects the pseudoknot structure of the 530 stem/loop region [Powers91], the 900 stem/loop region and the 5' terminus of the 16S rRNA [Stern88] from chemical probes. S12 functionally interacts with the 1409-1491 region [OConnor91, VilaSanjurjo], the 912 region [VilaSanjurjo], and G530 [Powers94] of 16S rRNA as well as the base at position 2661 in 23S rRNA [Tapio91a]. The Tyr116-Lys119 residues of S12 appear to be located near the peptidyl transferase center of the ribosome [Bischof95].

S12 can bind RNA with broad specificity and act as an RNA chaperone in vitro [Coetzee94], although only weakly in vivo [Clodi99]. S12 is thought to stimulate splicing of Group I introns by resolving misfolded RNAs and assisting proper folding [Coetzee94]. S12 was found to be required for efficient splicing of the phage T4 td gene in vivo [Semrad98].

S12 contains a β-methylthio modification at the Asp88 residue of the mature protein [Kowalak96a, Arnold99]. The enzyme responsible for this modification, RimO, has been identified [Anton08].

AsuB: "antisuppressor mutation" [Sullivan85]


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S13

Synonyms: RpsM

Gene: rpsM Accession Numbers: EG10912 (MetaCyc), b3298, ECK3285

Locations: cytosol, ribosome

Sequence Length: 118 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
GO:0042254 - ribosome biogenesis Inferred by computational analysis [Gaudet10]
Molecular Function: GO:0000049 - tRNA binding Inferred by computational analysis [UniProtGOA11, GOA06]
GO:0003676 - nucleic acid binding Inferred by computational analysis [GOA01]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
GO:0019843 - rRNA binding Inferred by computational analysis [UniProtGOA11, GOA06]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-35855N , EcoliWiki:b3298 , Mint:MINT-1290225 , PR:PRO_000023866 , Pride:P0A7S9 , Protein Model Portal:P0A7S9 , RefSeq:NP_417757 , SMR:P0A7S9 , String:511145.b3298 , UniProt:P0A7S9

Relationship Links: InterPro:IN-FAMILY:IPR001892 , InterPro:IN-FAMILY:IPR010979 , InterPro:IN-FAMILY:IPR018269 , InterPro:IN-FAMILY:IPR019980 , InterPro:IN-FAMILY:IPR027437 , Panther:IN-FAMILY:PTHR10871 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00416 , Prosite:IN-FAMILY:PS00646 , Prosite:IN-FAMILY:PS50159

Summary:
The S13 protein is a component of the 30S subunit of the ribosome, playing a key role in subunit association and the fidelity of translocation. The crystal structure of the ribosome [Schuwirth05], cryo-EM reconstructions [Gao03a], and crosslinking experiments [Lambert81] show that the S13 protein contacts the L5 protein of the large subunit of the ribosome.

S13 is thought to be involved in maintenance of pre-translocation state [Cukras03, Cukras05]. In vitro, a small subunit of the ribosome lacking S13 associates only poorly with the large subunit; the presence of tRNA and mRNA in the assay restores 70S complex formation [Cukras05]. In the absence of S13, initiation complex formation is defective [Cukras05], and the ribosome shows increased rates of factor-independent translocation [Cukras05]. In vivo, lack of S13 causes a deficit in polysome formation and the appearance of abundant free 30S and 50S subunits [Cukras05]. Ribosome modulation factor binds near S13, L2, and L13 [Yoshida02d].

S13 forms a complex with S19 in order to bind to 16S rRNA at its specific site [Dijk77, Pohl88]. The C-terminal domain of S13 is primarily responsible for rRNA binding; its N-terminal domain may be responsible for association with S19 [Schwarzbauer85]. S13 can be crosslinked to 16S rRNA [Hajnsdorf86, Osswald87]; the sites of interaction have been identified by hydroxyl radical probing [Powers88, Powers95a, Heilek96a]. S13 crosslinks to tRNA at the P site of the ribosome and weakly to tRNA at the A site [Osswald95]. Structural modelling suggested that the C-terminal region of S13 interacts with the P-site tRNA. Studies with rpsM mutants lacking this region show that the C-terminal tail is not essential for the function of S13, but such mutants have slower growth rates. In vitro, deletion of the C-terminal tail of S13 causes a lower affinity of the 30S subunit for tRNAs [Hoang04].

S13 was also shown to crosslink to IF2 and IF3 [Boileau83]

rpsM is not essential for viability of E. coli, but an rpsM deletion strain has a severe growth defect [Cukras05]. An S13 mutant decreases in vivo translation efficiency and acts as antisuppressor of some suppressor tRNAs [Faxen94]. Suppressors of rimM point and deletion mutations localize to the C terminus of S13 [Bylund97, Lovgren04].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S14

Synonyms: RpsN

Gene: rpsN Accession Numbers: EG10913 (MetaCyc), b3307, ECK3294

Locations: cytosol, ribosome

Sequence Length: 101 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
GO:0019843 - rRNA binding Inferred by computational analysis [GOA06]
Cellular Component: GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-35805N , EcoliWiki:b3307 , Mint:MINT-1295909 , PR:PRO_000023867 , Pride:P0AG59 , Protein Model Portal:P0AG59 , RefSeq:NP_417766 , SMR:P0AG59 , String:511145.b3307 , Swiss-Model:P0AG59 , UniProt:P0AG59

Relationship Links: InterPro:IN-FAMILY:IPR001209 , InterPro:IN-FAMILY:IPR018271 , InterPro:IN-FAMILY:IPR023036 , Panther:IN-FAMILY:PTHR19836 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00253 , Prosite:IN-FAMILY:PS00527

Summary:
The S14 protein is a component of the 30S subunit of the ribosome.

S14 has a role in tRNA binding [Graifer89, Kerlavage86]. S14 is photoaffinity labeled by puromycin, an analog of the 3' end of aminoacylated tRNA [Jaynes78, Weitzmann85, Bischof94]. S14 may be required for in vitro assembly of the small subunit [Ramakrishnan86].

A mixture containing S7, S14, and S19 protects the hairpin loop 41 near the 3' terminus of 16S rRNA against ribunuclease digestion [Wiener87]. The sites of interaction of S14 with 16S rRNA have been identified by hydroxyl radical probing [Powers88].

An amber mutation in rpsN exerts a polar effect on the genes distal to the rpsN gene in the spc operon [Cabezon80].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S15

Synonyms: SecC, RpsO

Gene: rpsO Accession Numbers: EG10914 (MetaCyc), b3165, ECK3154

Locations: cytosol, ribosome

Sequence Length: 89 AAs

GO Terms:

Biological Process: GO:0006378 - mRNA polyadenylation Inferred from experiment [Hajnsdorf95]
GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0019843 - rRNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA06, Mizushima70]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-47909N , EcoliWiki:b3165 , Mint:MINT-1299353 , PR:PRO_000023868 , Pride:P0ADZ4 , Protein Model Portal:P0ADZ4 , RefSeq:NP_417634 , SMR:P0ADZ4 , String:511145.b3165 , Swiss-Model:P0ADZ4 , UniProt:P0ADZ4

Relationship Links: InterPro:IN-FAMILY:IPR000589 , InterPro:IN-FAMILY:IPR005290 , InterPro:IN-FAMILY:IPR009068 , Panther:IN-FAMILY:PTHR23321:SF10 , PDB:Structure:1EG0 , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VAZ , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00312 , Prosite:IN-FAMILY:PS00362

Summary:
The S15 protein is a component of the 30S subunit of the ribosome and also functions in the post-transcriptional regulation of its own expression.

The S15 protein binds to 16S rRNA in the absence of other ribosomal proteins [Zimmermann72, Zimmermann75, Gregory84]. Nucleotides essential for the S15-16S rRNA interaction have been determined by mutagenesis [Stark84, Serganov01] and nuclease protection [Wiener88, Mougel88]. Binding of S8 to 16S rRNA influences the central domain organisation and affects the rRNA environment of S15 [Jagannathan03].

In addition to its function in the ribosome, the ribosomal protein S15 binds to its own mRNA, stabilizing a pseudoknot secondary structure and impeding translation initiation [Portier90, Philippe90, Portier90a, Philippe94, Benard94, Philippe95, Benard98]. S15 appears to prevent the formation of a functional ternary 30S-mRNA-tRNA(fMet) complex, trapping the ribosome in a preinitiation complex [Philippe93]. rpsO mRNA and 16S rRNA compete for binding to S15 [Philippe94]; common structural determinants between the mRNA and rRNA bindig sites have been investigated, showing that there is limited similarity between the two targets [Serganov02, Mathy04].

Ribosomes lacking S15 can suppress the rpoH11 mutation [Yano89]. A mutation in rpsO (secC) suppresses a secA(Ts) allele [FerroNovick84]. S15 appears to be required for the optimal synthesis of lipoprotein [Watanabe88].

Processing and degradation of rpsO mRNA have been studied extensively; see for example [Le02b, Marujo03, Folichon03, Folichon] and references therein.

Reviews: [Ehresmann95, Springer03]


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S16

Synonyms: RpsP

Gene: rpsP Accession Numbers: EG10915 (MetaCyc), b2609, ECK2606

Locations: cytosol, ribosome

Sequence Length: 82 AAs

GO Terms:

Biological Process: GO:0000028 - ribosomal small subunit assembly Inferred from experiment [Ramaswamy09a]
GO:0000737 - DNA catabolic process, endonucleolytic Inferred from experiment [Oberto96]
GO:0006412 - translation Inferred by computational analysis [GOA01]
GO:0090305 - nucleic acid phosphodiester bond hydrolysis Inferred by computational analysis [UniProtGOA11]
Molecular Function: GO:0004520 - endodeoxyribonuclease activity Inferred from experiment [Oberto96]
GO:0043566 - structure-specific DNA binding Inferred from experiment [Bonnefoy97]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
GO:0004518 - nuclease activity Inferred by computational analysis [UniProtGOA11]
GO:0004519 - endonuclease activity Inferred by computational analysis [UniProtGOA11]
GO:0016787 - hydrolase activity Inferred by computational analysis [UniProtGOA11]
Cellular Component: GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-47829N , EcoliWiki:b2609 , Mint:MINT-1280042 , ModBase:P0A7T3 , PR:PRO_000023869 , Pride:P0A7T3 , Protein Model Portal:P0A7T3 , RefSeq:NP_417100 , SMR:P0A7T3 , String:511145.b2609 , UniProt:P0A7T3

Relationship Links: InterPro:IN-FAMILY:IPR000307 , InterPro:IN-FAMILY:IPR020592 , InterPro:IN-FAMILY:IPR023803 , Panther:IN-FAMILY:PTHR12919 , PDB:Structure:1M5G , PDB:Structure:1ML5 , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00886 , Prosite:IN-FAMILY:PS00732

Summary:
The S16 protein is a component of the 30S subunit of the ribosome and is essential for viability [Persson95].

S16 was also shown to be a DNA-binding protein with Mg2+-Mn2+-dependent endonuclease activity [Oberto96]. S16 preferentially binds to cruciform DNA structures; its endonuclease activity appears to be sequence-specific [Bonnefoy97].

S16 interacts with the 5' domain of 16S rRNA [Stern88a, Weitzmann93]. Binding of S16 to 16S rRNA is dependent on prior binding of S4 and S20 [Held74]. Subsequent binding of S16 suppresses non-native assembly intermediates and drives a conformational switch at helix 3 of 16S rRNA, stabilizing the decoding center of the 30S subunit [Ramaswamy09a].

S16 may bind Zn2+ [Katayama02].

Expression of rpsP is induced 16-fold upon exposure of cells to the biocide polyhexamethylene biguanide [Allen06].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S17

Synonyms: NeaA, RpsQ

Gene: rpsQ Accession Numbers: EG10916 (MetaCyc), b3311, ECK3298

Locations: cytosol, ribosome

Sequence Length: 84 AAs

GO Terms:

Biological Process: GO:0046677 - response to antibiotic Inferred from experiment Inferred by computational analysis [UniProtGOA11, Bollen75]
GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0019843 - rRNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA06, Held74]
GO:0070181 - small ribosomal subunit rRNA binding Inferred from experiment [Held74]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-47952N , DisProt:DP00242 , EcoliWiki:b3311 , PR:PRO_000023870 , Pride:P0AG63 , Protein Model Portal:P0AG63 , RefSeq:NP_417770 , SMR:P0AG63 , String:511145.b3311 , Swiss-Model:P0AG63 , UniProt:P0AG63

Relationship Links: InterPro:IN-FAMILY:IPR000266 , InterPro:IN-FAMILY:IPR012340 , InterPro:IN-FAMILY:IPR019979 , InterPro:IN-FAMILY:IPR019984 , Panther:IN-FAMILY:PTHR10744 , PDB:Structure:1EG0 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00366 , Prints:IN-FAMILY:PR00973 , ProDom:IN-FAMILY:PD001295 , Prosite:IN-FAMILY:PS00056

Summary:
The S17 protein is a component of the 30S subunit of the ribosome.

S17 binds directly to the 5' domain of 16S rRNA [Stern88a, Held74, Weitzmann93, Epe82, Wiener88]. Specific contact sites have been identified [Urlaub95, Urlaub97]. S17 can also be crosslinked to tRNA in the A site [Graifer89].

The initiating methionine of S17 is cleaved [Wasinger98, Arnold99].

A conditionally lethal point mutation in rpsQ leads to impaired assembly of the 30S ribosomal subunit [Herzog79]. Strains carrying the neaA301 allele of rpsQ exhibit neamine resistance [Bollen75] and increased misreading by the ribosome in vitro [Topisirovic77].

NeaA: "neamine resistance" [Bollen75]


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S18

Synonyms: RpsR

Gene: rpsR Accession Numbers: EG10917 (MetaCyc), b4202, ECK4198

Locations: cytosol, ribosome

Sequence Length: 75 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0005515 - protein binding Inferred from experiment [Hauser14, Rajagopala14]
GO:0048027 - mRNA 5'-UTR binding Inferred from experiment [Matelska13]
GO:0070181 - small ribosomal subunit rRNA binding Inferred from experiment [Gregory84]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
GO:0019843 - rRNA binding Inferred by computational analysis [UniProtGOA11, GOA06]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-47889N , DisProt:DP00146 , EcoliWiki:b4202 , Mint:MINT-1247424 , ModBase:P0A7T7 , PR:PRO_000023871 , Pride:P0A7T7 , Protein Model Portal:P0A7T7 , RefSeq:NP_418623 , SMR:P0A7T7 , String:511145.b4202 , UniProt:P0A7T7

Relationship Links: InterPro:IN-FAMILY:IPR001648 , InterPro:IN-FAMILY:IPR018275 , Panther:IN-FAMILY:PTHR13479 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF01084 , Prints:IN-FAMILY:PR00974 , ProDom:IN-FAMILY:PD002239 , Prosite:IN-FAMILY:PS00057

Summary:
The S18 protein is a component of the 30S subunit of the ribosome.

The N-terminal alanine residue of S18 is acetylated by the RimI enzyme [Isono80, Arnold99]. N-terminal acetylation of S18 and S5 correlates with correct folding of the platform and central pseudoknot domains of 16S rRNA [Clatterbuck13].

S18 interacts with the central domain of 16S rRNA; the interaction is dependent on S8 and S15 [Gregory84, Moine88, Stern88]. S18 may be involved in binding of aminoacyl-tRNA to the P site of the ribosome [Ginzburg73]. S18 is photoaffinity labeled by puromycin, an analog of the 3' end of aminoacylated tRNA [Bischof94].

S18 was also shown to crosslink to IF3 [MacKeen80, Cooperman81], IF1 [Boileau83] and 4.5S RNA [Gu05].

Expression analysis of rpsFp indicates that it may be autoregulated by one or more of its operon components [Nakayashiki13]. Coexpressed S6:S18 were found to bind to the rpsF 5'-UTR in a region with structural similarity to their binding site in 16S rRNA. S6 together with S18 may thus be responsible for autoregulation of the rpsF-priB-rpsR-rplI operon [Matelska13].

Review: [Nesterchuk11]


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S19

Synonyms: RpsS

Gene: rpsS Accession Numbers: EG10918 (MetaCyc), b3316, ECK3303

Locations: cytosol, ribosome

Sequence Length: 92 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis Inferred from experiment [Held73, GOA06, GOA01]
Molecular Function: GO:0003735 - structural constituent of ribosome Inferred by computational analysis Inferred from experiment [WittmannLiebold73, GOA01]
GO:0000049 - tRNA binding Inferred by computational analysis [GOA00]
GO:0003723 - RNA binding Inferred by computational analysis [GOA00]
GO:0019843 - rRNA binding Inferred by computational analysis [GOA06, GOA00]
Cellular Component: GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [WittmannLiebold73]
GO:0005829 - cytosol
GO:0005840 - ribosome Inferred by computational analysis [GOA01, GOA00]
GO:0015935 - small ribosomal subunit Inferred by computational analysis [GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [GOA00]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-47904N , DisProt:DP00147 , EcoliWiki:b3316 , PR:PRO_000023872 , Pride:P0A7U3 , Protein Model Portal:P0A7U3 , RefSeq:NP_417775 , SMR:P0A7U3 , String:511145.b3316 , UniProt:P0A7U3

Relationship Links: InterPro:IN-FAMILY:IPR002222 , InterPro:IN-FAMILY:IPR005732 , InterPro:IN-FAMILY:IPR020934 , InterPro:IN-FAMILY:IPR023575 , Panther:IN-FAMILY:PTHR11880 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF00203 , Prints:IN-FAMILY:PR00975 , Prosite:IN-FAMILY:PS00323

Summary:
The S19 protein is a component of the 30S subunit of the ribosome.

S19 interacts with 16S rRNA [Wiener87, Wiener88]. S13 forms a complex with S19 in order to bind to 16S rRNA at its specific site [Dijk77, Schwarzbauer85, Pohl88]. Binding of S19 to 16S rRNA is necessary and sufficient for converting 16S rRNA into a substrate for m2G966 methyltransferase, while it abolishes activity of m5C967 methyltransferase [Weitzmann91].

S19 can be crosslinked to aminoacyl-tRNA at the ribosomal A site [Lin84, Osswald95] and P site [Rosen93]. S19 was also shown to crosslink to IF3 [Boileau83].

The ribosome maturation protein RimM binds to S19 in the 30S subunit. An rpsS mutation suppresses the polysome and 16S rRNA processing deficiencies of a rimM point mutant, but not a rimM deletion mutant [Lovgren04].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S20

Synonyms: SupS, RpsT

Gene: rpsT Accession Numbers: EG10919 (MetaCyc), b0023, ECK0024

Locations: cytosol, ribosome

Sequence Length: 87 AAs

GO Terms:

Biological Process: GO:0043086 - negative regulation of catalytic activity Inferred from experiment [Panagiotidis84]
GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0008073 - ornithine decarboxylase inhibitor activity Inferred from experiment [Panagiotidis84]
GO:0070181 - small ribosomal subunit rRNA binding Inferred from experiment [Marquardt79]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
GO:0019843 - rRNA binding Inferred by computational analysis [UniProtGOA11, GOA06]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation
regulation type of regulation posttranscriptional inhibition / activation of enzymes

Unification Links: DIP:DIP-35857N , EcoliWiki:b0023 , PR:PRO_000023873 , Pride:P0A7U7 , Protein Model Portal:P0A7U7 , RefSeq:NP_414564 , SMR:P0A7U7 , String:511145.b0023 , UniProt:P0A7U7

Relationship Links: InterPro:IN-FAMILY:IPR002583 , PDB:Structure:1M5G , PDB:Structure:1P6G , PDB:Structure:1P87 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2GY9 , PDB:Structure:2GYB , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF01649 , ProDom:IN-FAMILY:PD004231

Summary:
The S20 protein is a component of the 30S subunit of the ribosome and appears to be involved in translation initiation and the association of the 30S and 50S subunits [Gotz90]. S20 was also identified as antizyme 1, an inhibitor of the biosynthetic ornithine and arginine decarboxylases; these enzymes are involved in the biosynthesis of polyamine [Panagiotidis84]. S20 is identical to L26.

The synthesis of S20 is regulated at the post-transcriptional level [Parsons83, Wirth81]; in an in vitro system, S20 represses its own synthesis [Wirth82]. However, S20 doesn't show affinity for its own mRNA [Donly88]. The UUG initiation codon appears to be important for regulation [Parsons88]. Processing and degradation of rpsT mRNA have been studied extensively; see for example [Baker03a, Mackie00] and references therein. rpsT mRNA stability and translational efficiency are linked [Parsons88, Rapaport94].

S20 physically interacts with ornithine and arginine decarboxylase, and overexpression of S20 decreases the production of polyamine in vivo [Panagiotidis95]. Levels of S20 increase in response to polyamines; the effect is thought to be due to an increase in the level of transcription of rpsT [Huang90a].

S20 binds to the 5' domain and the 3' minor domain of 16S rRNA [Marquardt79, Stern88a, Weitzmann93, Cormack91]. C-terminal residues of S20 are required for binding to 16S rRNA [Donly88]. Hydroxyl radical footprinting provided evidence that S20 is located near the bottom of the 30S subunit [Culver98]. Further footprinting studies provided insight into 30S subunit assembly [Dutca08]. S20 has a local effect on the stability of the folded structure of 16S rRNA [Ramaswamy09].

The sup(S20) mutation in rpsT suppresses defects of an alanyl-tRNA synthetase mutant [Bock74, Buckel76]. A spontaneous mutation in rpsT causes a temperature-sensitive phenotype and increases the ability of the ribosome to misread nonsense stop codons [RydenAulin93]. An rpsT null mutant shows impaired growth, but is viable [Bubunenko07]. A 30S ribosomal subunit lacking S20 shows a reduced rate of mRNA binding and 70S complex formation [Tobin10].


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S21

Synonyms: RpsU

Gene: rpsU Accession Numbers: EG10920 (MetaCyc), b3065, ECK3055

Locations: cytosol, ribosome

Sequence Length: 71 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA01]
Molecular Function: GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Hindennach71a, WittmannLiebold73]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-47839N , EcoliWiki:b3065 , Mint:MINT-1281887 , PR:PRO_000023874 , Pride:P68679 , Protein Model Portal:P68679 , RefSeq:NP_417537 , SMR:P68679 , String:511145.b3065 , UniProt:P68679

Relationship Links: InterPro:IN-FAMILY:IPR001911 , InterPro:IN-FAMILY:IPR018278 , PDB:Structure:1VS5 , PDB:Structure:1VS7 , PDB:Structure:2AVY , PDB:Structure:2AW7 , PDB:Structure:2I2P , PDB:Structure:2I2U , PDB:Structure:2QAL , PDB:Structure:2QAN , PDB:Structure:2QB9 , PDB:Structure:2QBB , PDB:Structure:2QBD , PDB:Structure:2QBF , PDB:Structure:2QBH , PDB:Structure:2QBJ , PDB:Structure:2QOU , PDB:Structure:2QOW , PDB:Structure:2QOY , PDB:Structure:2QP0 , PDB:Structure:2VHO , PDB:Structure:2VHP , PDB:Structure:2WWL , PDB:Structure:2YKR , PDB:Structure:2Z4K , PDB:Structure:2Z4M , PDB:Structure:3DF1 , PDB:Structure:3DF3 , PDB:Structure:3E1A , PDB:Structure:3E1C , PDB:Structure:3FIH , PDB:Structure:3I1M , PDB:Structure:3I1O , PDB:Structure:3I1Q , PDB:Structure:3I1S , PDB:Structure:3I1Z , PDB:Structure:3I21 , PDB:Structure:3IZV , PDB:Structure:3IZW , PDB:Structure:3J00 , PDB:Structure:3J0U , PDB:Structure:3J0V , PDB:Structure:3J0X , PDB:Structure:3J0Z , PDB:Structure:3J10 , PDB:Structure:3J13 , PDB:Structure:3J18 , PDB:Structure:3J36 , PDB:Structure:3KC4 , PDB:Structure:3OAQ , PDB:Structure:3OAR , PDB:Structure:3OFA , PDB:Structure:3OFB , PDB:Structure:3OFO , PDB:Structure:3OFP , PDB:Structure:3OFX , PDB:Structure:3OFY , PDB:Structure:3OR9 , PDB:Structure:3ORA , PDB:Structure:3SFS , PDB:Structure:3UOQ , PDB:Structure:4A2I , PDB:Structure:4ADV , PDB:Structure:4GAQ , PDB:Structure:4GAS , PDB:Structure:4GD1 , PDB:Structure:4GD2 , PDB:Structure:4KIY , PDB:Structure:4KJ0 , PDB:Structure:4KJ2 , PDB:Structure:4KJ4 , PDB:Structure:4KJ6 , PDB:Structure:4KJ8 , PDB:Structure:4KJA , PDB:Structure:4KJC , Pfam:IN-FAMILY:PF01165 , Prints:IN-FAMILY:PR00976 , ProDom:IN-FAMILY:PD005521 , Prosite:IN-FAMILY:PS01181

Summary:
The S21 protein is a component of the 30S subunit of the ribosome. S21 was found to associate with the 50S subunit of the ribosome as well as the 30S subunit [Odom84].

Interactions between S21 and 16S rRNA have been mapped [Stern88]. S21 also crosslinks to the 4.5S RNA of the signal recognition particle [Gu05]. Interactions between S21 and mRNA can be shown by fluorescence energy transfer [Czworkowski91] and crosslinking [Brandt92].

S21 is required for full activity of translation initiation [Held74a, Van81]. S21 was also shown to crosslink to IF3 [MacKeen80, Cooperman81].

Processing and degradation of the rpsU-dnaG-rpoD operon mRNA has been studied; see for example [Yajnik93, Lupski84] and references therein.

Review: [Lupski84]


Subunit of 30S ribosomal subunit: 30S ribosomal subunit protein S22

Synonyms: Sra, RpsV, Protein D

Gene: sra Accession Numbers: EG11508 (MetaCyc), b1480, ECK1474

Locations: cytosol, ribosome

Sequence Length: 45 AAs

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA01]
Molecular Function: GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0005840 - ribosome Inferred by computational analysis [GOA01]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Unification Links: DIP:DIP-48175N , EcoliWiki:b1480 , Mint:MINT-1322613 , PR:PRO_000023982 , Pride:P68191 , Protein Model Portal:P68191 , RefSeq:NP_415997 , String:511145.b1480 , UniProt:P68191

Relationship Links: InterPro:IN-FAMILY:IPR012607 , Pfam:IN-FAMILY:PF08136 , ProDom:IN-FAMILY:PD049510

Summary:
Sra is a sub-stoichiometric component of the 30S ribosomal subunit that is more abundant at stationary phase than during log phase growth [Wada86, Izutsu01]. The amino-terminal methionine residue is not cleaved [Arnold99].

Transcription is induced [Selinger00, Izutsu01] and protein abundance increases [Izutsu01] under stationary phase conditions. σS, cAMP, ppGpp, Fis, and Ihf may be involved in the transcription of sra during stationary phase [Izutsu01]. sra is also cotranscribed with the bdm gene from a promoter upstream of bdm which is activated by osmotic shock and dependent on the RcsCDB phosphorelay system [FrancezCharlot05].

An sra deletion mutant does not have an obvious growth defect [Izutsu01].

Sra: "stationary-phase-induced ribosome-associated" [Izutsu01]


Subunit of 30S ribosomal subunit: 16S ribosomal RNA (rrsA)

Synonyms: rrsA

Locations: cytoplasm

GO Terms:

Biological Process: GO:0006412 - translation
Cellular Component: GO:0005737 - cytoplasm
GO:0022627 - cytosolic small ribosomal subunit

Reactions known to consume the compound:

Not in pathways:
rRNA + S-adenosyl-L-methionine → rRNA containing N6,N6-dimethyladenine + S-adenosyl-L-homocysteine


a single-stranded RNA + n H2O → n a ribonucleoside 5'-monophosphate

Reactions known to produce the compound:

tRNA processing :
a tRNA precursor with a 5' extension and a short 3' extension + H2O → a tRNA precursor with a short 3' extension + a single-stranded RNA
a tRNA precursor with a 5' extension + H2O → an uncharged tRNA + a single-stranded RNA

Not in pathways:
RNase III mRNA processing substrate + 2 H2O → RNase III processing product mRNA + 2 a single-stranded RNA
RNase E degradation substrate mRNA + n H2O → n a single-stranded RNA
RNase E mRNA processing substrate + n H2O → RNase E processing product mRNA + n a single-stranded RNA
9S rRNA + 2 H2O → 5S rRNA + 2 a single-stranded RNA
RNase G degradation substrate mRNA + H2O → 2 a single-stranded RNA
YhaV endonuclease degradation substrate mRNA + H2O → 2 a single-stranded RNA
YhaV endonuclease degradation substrate rRNA + H2O → 2 a single-stranded RNA
an mRNA[periplasmic space] + H2O[periplasmic space] → 2 a single-stranded RNA[periplasmic space]
23S rRNA[periplasmic space] + H2O[periplasmic space] → 2 a single-stranded RNA[periplasmic space]
an mRNA + H2O → a single-stranded RNA + a single-stranded RNA
an mRNA + H2O → a single-stranded RNA + a single-stranded RNA

Reactions known to both consume and produce the compound:

Not in pathways:
(ribonucleotides)(n) + phosphate ↔ (ribonucleotides)(n-1) + a nucleoside diphosphate

In Reactions of unknown directionality:

Not in pathways:
rRNA[periplasmic space] = 2 a single-stranded RNA[periplasmic space]


rRNA[periplasmic space] = 2 a single-stranded RNA[periplasmic space]


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