Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
twitter

Escherichia coli K-12 substr. MG1655 Transporter: galactofuranose / galactopyranose ABC transporter

Subunit composition of galactofuranose / galactopyranose ABC transporter = [YjfF][YtfR][YtfT]2[YtfQ]
         galactofuranose / galactospyranose ABC transporter - putative membrane subunit = YjfF (summary available)
         galactofuranose / galactopyranose ABC transporter - putative ATP binding subunit = YtfR (summary available)
         galactofuranose / galactopyranose ABC transporter - putative membrane subunit = YtfT (summary available)
         galactofuranose / galactopyranose ABC transporter - periplasmic binding protein = YtfQ (summary available)

Summary:
YtfQRT/YjfF is a galactofuranose and galactopyranose transporter that is a member of the ATP-Binding Cassette (ABC) superfamily of transporters. YtfR is the putative ATP-binding component. YtfT and YjfF are the putative membrane components. YtfQ is the periplasmic binding protein [Horler09].

Locations: inner membrane

Gene-Reaction Schematic: ?

GO Terms:

Biological Process: GO:0015757 - galactose transport Inferred from experiment [Horler09]
Molecular Function: GO:0005354 - galactose transmembrane transporter activity Inferred from experiment [Horler09]
GO:0015407 - monosaccharide-transporting ATPase activity Inferred by computational analysis [Saurin99]
Cellular Component: GO:0043190 - ATP-binding cassette (ABC) transporter complex Inferred by computational analysis [Saurin99]


Enzymatic reaction of: transport of β-D-galactofuranose (galactofuranose / galactopyranose ABC transporter)


Enzymatic reaction of: transport of α-D-galactofuranose (galactofuranose / galactopyranose ABC transporter)

EC Number: 3.6.3.-


Enzymatic reaction of: transport of β-D-galactose (galactofuranose / galactopyranose ABC transporter)

EC Number: 3.6.3.17


Subunit of galactofuranose / galactopyranose ABC transporter: galactofuranose / galactospyranose ABC transporter - putative membrane subunit

Gene: yjfF Accession Numbers: EG12439 (EcoCyc), b4231, ECK4226

Locations: inner membrane

Sequence Length: 331 AAs

Molecular Weight: 34.978 kD (from nucleotide sequence)

GO Terms:

Biological Process: GO:0015757 - galactose transport Inferred from experiment [Horler09]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a, GOA01a]
Molecular Function: GO:0050782 - galactose uniporter activity Inferred from experiment [Horler09]
GO:0005215 - transporter activity Inferred by computational analysis [GOA01a]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, UniProtGOA11a, DiazMejia09, Daley05]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a, GOA01a]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11a, Saurin99]
GO:0043190 - ATP-binding cassette (ABC) transporter complex Inferred by computational analysis [Saurin99]

MultiFun Terms: cell structure membrane
transport Channel-type Transporters Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases ABC superfamily, membrane component

Unification Links: EcoliWiki:b4231 , Protein Model Portal:P37772 , RefSeq:NP_418652 , String:511145.b4231 , UniProt:P37772

Relationship Links: InterPro:IN-FAMILY:IPR001851 , Pfam:IN-FAMILY:PF02653

Summary:
YjfF is a putative membrane component of a galactose ABC transporter.

Essentiality data for yjfF knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]
Yes [Feist07, Comment 4]

Subunit of galactofuranose / galactopyranose ABC transporter: galactofuranose / galactopyranose ABC transporter - putative ATP binding subunit

Synonyms: YtfR, YtfS

Gene: ytfR Accession Numbers: EG12518 (EcoCyc), b4485, ECK4224

Locations: inner membrane, cytosol

Sequence Length: 500 AAs

Molecular Weight: 55.26 kD (from nucleotide sequence)

GO Terms:

Biological Process: GO:0015757 - galactose transport Inferred from experiment [Horler09]
GO:0006200 - ATP catabolic process Inferred by computational analysis [GOA01a]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a]
Molecular Function: GO:0015407 - monosaccharide-transporting ATPase activity Inferred from experiment Inferred by computational analysis [Saurin99, Horler09]
GO:0000166 - nucleotide binding Inferred by computational analysis [UniProtGOA11a]
GO:0005524 - ATP binding Inferred by computational analysis [UniProtGOA11a, GOA01a]
GO:0016887 - ATPase activity Inferred by computational analysis [GOA01a]
Cellular Component: GO:0005829 - cytosol
GO:0005886 - plasma membrane Inferred by computational analysis [DiazMejia09]
GO:0043190 - ATP-binding cassette (ABC) transporter complex Inferred by computational analysis [Saurin99]

MultiFun Terms: transport Channel-type Transporters Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases ABC superfamily ATP binding cytoplasmic component

Unification Links: DIP:DIP-48183N , EcoliWiki:b4485 , ModBase:Q6BEX0 , Pride:Q6BEX0 , Protein Model Portal:Q6BEX0 , RefSeq:YP_026286 , SMR:Q6BEX0 , String:511145.b4485 , UniProt:Q6BEX0

Relationship Links: InterPro:IN-FAMILY:IPR003439 , InterPro:IN-FAMILY:IPR003593 , InterPro:IN-FAMILY:IPR017871 , InterPro:IN-FAMILY:IPR027417 , Pfam:IN-FAMILY:PF00005 , Prosite:IN-FAMILY:PS00211 , Prosite:IN-FAMILY:PS50893 , Smart:IN-FAMILY:SM00382

Summary:
YtfR is the putative ATP-binding component of a galactose ABC transporter.

Essentiality data for ytfR knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]
Yes [Feist07, Comment 4]

Subunit of galactofuranose / galactopyranose ABC transporter: galactofuranose / galactopyranose ABC transporter - putative membrane subunit

Gene: ytfT Accession Numbers: EG12520 (EcoCyc), b4230, ECK4225

Locations: inner membrane

Sequence Length: 340 AAs

Molecular Weight: 35.528 kD (from nucleotide sequence)

GO Terms:

Biological Process: GO:0015757 - galactose transport Inferred from experiment [Horler09]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a, GOA01a]
Molecular Function: GO:0050782 - galactose uniporter activity Inferred from experiment [Horler09]
GO:0005215 - transporter activity Inferred by computational analysis [GOA01a]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, UniProtGOA11a, DiazMejia09, Daley05]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a, GOA01a]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11a, Saurin99]
GO:0043190 - ATP-binding cassette (ABC) transporter complex Inferred by computational analysis [Saurin99]

MultiFun Terms: cell structure membrane
transport Channel-type Transporters Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases ABC superfamily, membrane component

Unification Links: DIP:DIP-12946N , EcoliWiki:b4230 , Mint:MINT-1249310 , Pride:P39328 , Protein Model Portal:P39328 , RefSeq:NP_418651 , String:511145.b4230 , UniProt:P39328

Relationship Links: InterPro:IN-FAMILY:IPR001851 , Pfam:IN-FAMILY:PF02653

Summary:
YtfT is a putative membrane component of a galactose ABC transporter.

Essentiality data for ytfT knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]
Yes [Feist07, Comment 4]

Subunit of galactofuranose / galactopyranose ABC transporter: galactofuranose / galactopyranose ABC transporter - periplasmic binding protein

Gene: ytfQ Accession Numbers: EG12517 (EcoCyc), b4227, ECK4223

Locations: periplasmic space, inner membrane

Sequence Length: 318 AAs

Molecular Weight: 34.345 kD (from nucleotide sequence)

GO Terms:

Biological Process: GO:0015757 - galactose transport Inferred from experiment [Horler09]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a]
Molecular Function: GO:0005534 - galactose binding Inferred from experiment [Horler09]
Cellular Component: GO:0030288 - outer membrane-bounded periplasmic space Inferred from experiment Inferred by computational analysis [DiazMejia09, Han13, LopezCampistrou05]
GO:0042597 - periplasmic space Inferred by curator Inferred by computational analysis [UniProtGOA11, UniProtGOA11a]
GO:0043190 - ATP-binding cassette (ABC) transporter complex Inferred by computational analysis [Saurin99]

MultiFun Terms: transport Channel-type Transporters Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases ABC superfamily, periplasmic binding component

Unification Links: EcoliWiki:b4227 , ModBase:P39325 , Pride:P39325 , Protein Model Portal:P39325 , RefSeq:NP_418648 , SMR:P39325 , String:511145.b4227 , UniProt:P39325

Relationship Links: InterPro:IN-FAMILY:IPR025997 , InterPro:IN-FAMILY:IPR028082 , PDB:Structure:2VK2 , Pfam:IN-FAMILY:PF13407

Summary:
YtfQ is the periplasmic binding component of a galactose ABC transporter. Purified YtfQ binds galactose with a Kd of 1.7μM and arabinose with a Kd of 1.3μM [Horler09]. YtfQ exhibits selective binding of galactofuranose over galactopyranose [Horler09]. YtfQ is able to recognise both α and β forms of galactofuranose [Horler09]. The crystal structure of YtfQ with a single molecule of galactofuranose in its ligand binding pocket has been resolved at 1.2Å [Horler09].

YtfQ is upregulated under glucose-limited fed-batch conditions [Raman05].

Essentiality data for ytfQ knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]
Yes [Feist07, Comment 4]

References

Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

Daley05: Daley DO, Rapp M, Granseth E, Melen K, Drew D, von Heijne G (2005). "Global topology analysis of the Escherichia coli inner membrane proteome." Science 308(5726);1321-3. PMID: 15919996

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

Feist07: Feist AM, Henry CS, Reed JL, Krummenacker M, Joyce AR, Karp PD, Broadbelt LJ, Hatzimanikatis V, Palsson BO (2007). "A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information." Mol Syst Biol 3;121. PMID: 17593909

Gerdes03: Gerdes SY, Scholle MD, Campbell JW, Balazsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabasi AL, Oltvai ZN, Osterman AL (2003). "Experimental determination and system level analysis of essential genes in Escherichia coli MG1655." J Bacteriol 185(19);5673-84. PMID: 13129938

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

Han13: Han MJ, Kim JY, Kim JA (2013). "Comparison of the large-scale periplasmic proteomes of the Escherichia coli K-12 and B strains." J Biosci Bioeng. PMID: 24140104

Horler09: Horler RS, Muller A, Williamson DC, Potts JR, Wilson KS, Thomas GH (2009). "Furanose-specific sugar transport: characterization of a bacterial galactofuranose-binding protein." J Biol Chem 284(45);31156-63. PMID: 19744923

Joyce06: Joyce AR, Reed JL, White A, Edwards R, Osterman A, Baba T, Mori H, Lesely SA, Palsson BO, Agarwalla S (2006). "Experimental and computational assessment of conditionally essential genes in Escherichia coli." J Bacteriol 188(23);8259-71. PMID: 17012394

LopezCampistrou05: Lopez-Campistrous A, Semchuk P, Burke L, Palmer-Stone T, Brokx SJ, Broderick G, Bottorff D, Bolch S, Weiner JH, Ellison MJ (2005). "Localization, annotation, and comparison of the Escherichia coli K-12 proteome under two states of growth." Mol Cell Proteomics 4(8);1205-9. PMID: 15911532

Raman05: Raman B, Nandakumar MP, Muthuvijayan V, Marten MR (2005). "Proteome analysis to assess physiological changes in Escherichia coli grown under glucose-limited fed-batch conditions." Biotechnol Bioeng 92(3);384-92. PMID: 16180237

Saurin99: Saurin W, Hofnung M, Dassa E (1999). "Getting in or out: early segregation between importers and exporters in the evolution of ATP-binding cassette (ABC) transporters." J Mol Evol 1999;48(1);22-41. PMID: 9873074

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries."

UniProtGOA11a: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 18.5 on Sun Nov 23, 2014, BIOCYC14B.