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Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
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for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
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for maintenance.

Escherichia coli K-12 substr. MG1655 Polypeptide: periplasmic cystine-binding protein; member of extracellular bacterial solute-binding protein family III

Gene: fliY Accession Numbers: G7039 (EcoCyc), b1920, ECK1919

Synonyms: yzzR, ssi7

Regulation Summary Diagram: ?

FliY is a periplasmic [Mytelka96] cystine-binding protein [Butler93]. FliY is a family 3-type extracellular bacterial solute-binding protein [Mytelka96]. FliY is suggested to participate in transport of amino acid-like compounds and/or in regulation of class III transcription [Mytelka96]. The corresponding gene in Salmonella typhimurium is transcribed from both flagellar and non-flagellar promoters, suggesting that fliY may not be a flagellar gene [Ikebe99a].

The protein is produced as a precursor with a cytoplasmic export signal, and the precursor is processed to yield a mature form of 27 kDa [Mytelka96].

Overproduction does not affect motility [Mytelka96]. A fliZ fliY double mutant shows a partial defect in motility [Mytelka96], which is suggested to be due to the fliZ mutation [Ikebe99a].

FliY has similarity to E. coli PheC [Mytelka96], to the L-cystine uptake protein of Lactobacillus fermentum BR11, BspA, [Turner99a], and to the Salmonella typhimurium FliY protein [Ikebe99a].

FliY, YecS and YecC may function as a cystine transport system [Kertesz01].

Regulation has been described [Mytelka96, Kirkpatrick01, Quadroni96, Ikebe99a]. Protein abundance is increased by acetate supplementation of the media [Kirkpatrick01] or by sulfate starvation [Quadroni96]. The corresponding gene in Salmonella typhimurium is transcribed from both the flagellar promoter upstream of the fliA gene and from a non-flagellar promoter upstream of the fliY gene [Ikebe99a].

Ssi7: "sulfate starvation-induced" [Quadroni96].

Citations: [Deutch14]

Gene Citations: [Zaslaver06, Bertin94]

Locations: periplasmic space

Map Position: [1,997,609 <- 1,998,409] (43.05 centisomes)
Length: 801 bp / 266 aa

Molecular Weight of Polypeptide: 29.039 kD (from nucleotide sequence), 27 kD (experimental)

Unification Links: ASAP:ABE-0006392 , DIP:DIP-47980N , EchoBASE:EB2545 , EcoGene:EG12680 , EcoliWiki:b1920 , Mint:MINT-1231539 , ModBase:P0AEM9 , OU-Microarray:b1920 , PortEco:fliY , PR:PRO_000022670 , Pride:P0AEM9 , Protein Model Portal:P0AEM9 , RefSeq:NP_416430 , RegulonDB:G7039 , SMR:P0AEM9 , String:511145.b1920 , UniProt:P0AEM9

Relationship Links: InterPro:IN-FAMILY:IPR001638 , InterPro:IN-FAMILY:IPR018313 , Pfam:IN-FAMILY:PF00497 , Prosite:IN-FAMILY:PS01039 , Smart:IN-FAMILY:SM00062

In Paralogous Gene Group: 172 (5 members)

Genetic Regulation Schematic: ?

GO Terms:

Biological Process: GO:0006810 - transport Inferred by computational analysis [UniProtGOA11, GOA01]
Molecular Function: GO:0005215 - transporter activity Inferred by computational analysis [GOA01]
Cellular Component: GO:0030288 - outer membrane-bounded periplasmic space Inferred from experiment Inferred by computational analysis [GOA01, DiazMejia09, Han13, LopezCampistrou05]
GO:0042597 - periplasmic space Inferred from experiment Inferred by computational analysis [UniProtGOA11a, UniProtGOA11, Mytelka96]

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

Essentiality data for fliY knockouts: ?

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

Sequence Features

Feature Class Location Citations Comment
Signal-Sequence 1 -> 29
[Butler93, Quadroni96, Link97, UniProt11]
Chain 30 -> 266
UniProt: Cystine-binding periplasmic protein;

Gene Local Context (not to scale): ?

Transcription Units:


Markus Krummenacker on Tue Oct 14, 1997:
Gene object created from Blattner lab Genbank (v. M52) entry.


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

Bertin94: Bertin P, Terao E, Lee EH, Lejeune P, Colson C, Danchin A, Collatz E (1994). "The H-NS protein is involved in the biogenesis of flagella in Escherichia coli." J Bacteriol 1994;176(17);5537-40. PMID: 8071234

Butler93: Butler JD, Levin SW, Facchiano A, Miele L, Mukherjee AB (1993). "Amino acid composition and N-terminal sequence of purified cystine binding protein of Escherichia coli." Life Sci 1993;52(14);1209-15. PMID: 8450713

Deutch14: Deutch CE, Spahija I, Wagner CE (2014). "Susceptibility of Escherichia coli to the toxic L-proline analogue L-selenaproline is dependent on two L-cystine transport systems." J Appl Microbiol. PMID: 25139244

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

GOA01: 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

Ikebe99a: Ikebe T, Iyoda S, Kutsukake K (1999). "Structure and expression of the fliA operon of Salmonella typhimurium." Microbiology 1999;145 ( Pt 6);1389-96. PMID: 10411266

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

Kertesz01: Kertesz MA (2001). "Bacterial transporters for sulfate and organosulfur compounds." Res Microbiol 152(3-4);279-90. PMID: 11421275

Kirkpatrick01: Kirkpatrick C, Maurer LM, Oyelakin NE, Yoncheva YN, Maurer R, Slonczewski JL (2001). "Acetate and formate stress: opposite responses in the proteome of Escherichia coli." J Bacteriol 183(21);6466-77. PMID: 11591692

Link97: Link AJ, Robison K, Church GM (1997). "Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12." Electrophoresis 18(8);1259-313. PMID: 9298646

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

Mytelka96: Mytelka DS, Chamberlin MJ (1996). "Escherichia coli fliAZY operon." J Bacteriol 1996;178(1);24-34. PMID: 8550423

Quadroni96: Quadroni M, Staudenmann W, Kertesz M, James P (1996). "Analysis of global responses by protein and peptide fingerprinting of proteins isolated by two-dimensional gel electrophoresis. Application to the sulfate-starvation response of Escherichia coli." Eur J Biochem 239(3);773-81. PMID: 8774726

Turner99a: Turner MS, Woodberry T, Hafner LM, Giffard PM (1999). "The bspA locus of Lactobacillus fermentum BR11 encodes an L-cystine uptake system." J Bacteriol 1999;181(7);2192-8. PMID: 10094698

UniProt09: UniProt Consortium (2009). "UniProt version 15.8 released on 2009-10-01 00:00:00." Database.

UniProt11: UniProt Consortium (2011). "UniProt version 2011-06 released on 2011-06-30 00:00:00." Database.

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

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

Zaslaver06: Zaslaver A, Bren A, Ronen M, Itzkovitz S, Kikoin I, Shavit S, Liebermeister W, Surette MG, Alon U (2006). "A comprehensive library of fluorescent transcriptional reporters for Escherichia coli." Nat Methods 3(8);623-8. PMID: 16862137

Other References Related to Gene Regulation

Dudin14: Dudin O, Geiselmann J, Ogasawara H, Ishihama A, Lacour S (2014). "Repression of flagellar genes in exponential phase by CsgD and CpxR, two crucial modulators of Escherichia coli biofilm formation." J Bacteriol 196(3);707-15. PMID: 24272779

Ide99: Ide N, Ikebe T, Kutsukake K (1999). "Reevaluation of the promoter structure of the class 3 flagellar operons of Escherichia coli and Salmonella." Genes Genet Syst 74(3);113-6. PMID: 10586520

Ikebe99: Ikebe T, Iyoda S, Kutsukake K (1999). "Promoter analysis of the class 2 flagellar operons of Salmonella." Genes Genet Syst 74(4);179-83. PMID: 10650844

Lee11: Lee YY, Barker CS, Matsumura P, Belas R (2011). "Refining the Binding of the Escherichia coli Flagellar Master Regulator, FlhD4C2, on a Base-Specific Level." J Bacteriol 193(16);4057-68. PMID: 21685294

Lehti12: Lehti TA, Bauchart P, Dobrindt U, Korhonen TK, Westerlund-Wikstrom B (2012). "The fimbriae activator MatA switches off motility in Escherichia coli by repression of the flagellar master operon flhDC." Microbiology 158(Pt 6);1444-55. PMID: 22422754

Liu94: Liu X, Matsumura P (1994). "The FlhD/FlhC complex, a transcriptional activator of the Escherichia coli flagellar class II operons." J Bacteriol 176(23);7345-51. PMID: 7961507

Liu96a: Liu X, Matsumura P (1996). "Differential regulation of multiple overlapping promoters in flagellar class II operons in Escherichia coli." Mol Microbiol 21(3);613-20. PMID: 8866483

Park01: Park K, Choi S, Ko M, Park C (2001). "Novel sigmaF-dependent genes of Escherichia coli found using a specified promoter consensus." FEMS Microbiol Lett 2001;202(2);243-50. PMID: 11520622

Partridge09: Partridge JD, Bodenmiller DM, Humphrys MS, Spiro S (2009). "NsrR targets in the Escherichia coli genome: new insights into DNA sequence requirements for binding and a role for NsrR in the regulation of motility." Mol Microbiol 73(4);680-94. PMID: 19656291

Stafford05: Stafford GP, Ogi T, Hughes C (2005). "Binding and transcriptional activation of non-flagellar genes by the Escherichia coli flagellar master regulator FlhD2C2." Microbiology 151(Pt 6);1779-88. PMID: 15941987

Theodorou12: Theodorou MC, Theodorou EC, Kyriakidis DA (2012). "Involvement of AtoSC two-component system in Escherichia coli flagellar regulon." Amino Acids 43(2);833-44. PMID: 22083893

Typas07a: Typas A, Stella S, Johnson RC, Hengge R (2007). "The -35 sequence location and the Fis-sigma factor interface determine sigmas selectivity of the proP (P2) promoter in Escherichia coli." Mol Microbiol 63(3);780-96. PMID: 17302803

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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 Dec 21, 2014, biocyc13.