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Escherichia coli K-12 substr. MG1655 Polypeptide: predicted Mg(2+) transport ATPase



Gene: yhiD Accession Numbers: EG11400 (EcoCyc), b3508, ECK3492

Synonyms: yhhE

Regulation Summary Diagram: ?

Summary:
YhiD is a putative ATP dependent transporter of the MgtC family and may be involved in cell density-dependent acid resistance. yhiD, hdeD, or gadE mutants had reduced viability at high cell density (~108 CFU per mL) at pH 2.1 compared to wild-type [Mates07].

Gene Citations: [Arnqvist94, Yoshida93, Tucker03]

Locations: inner membrane

Map Position: [3,653,278 <- 3,653,925] (78.74 centisomes)
Length: 648 bp / 215 aa

Molecular Weight of Polypeptide: 23.213 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0011456 , EchoBASE:EB1372 , EcoGene:EG11400 , EcoliWiki:b3508 , OU-Microarray:b3508 , PortEco:yhiD , Protein Model Portal:P0AFV2 , RefSeq:NP_417965 , RegulonDB:EG11400 , String:511145.b3508 , UniProt:P0AFV2

Relationship Links: InterPro:IN-FAMILY:IPR003416 , Pfam:IN-FAMILY:PF02308 , Prints:IN-FAMILY:PR01837

Genetic Regulation Schematic: ?

GO Terms:

Biological Process: GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a]
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]

MultiFun Terms: transport Putative uncharacterized transport protein

Essentiality data for yhiD 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]

Credits:
Curated 27-Jan-2006 by Shearer A , SRI International
Last-Curated ? 16-Apr-2007 by Johnson A , TIGR


Sequence Features

Feature Class Location Citations Comment
Transmembrane-Region 1 -> 21
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 36 -> 56
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 67 -> 87
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 92 -> 112
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 118 -> 138
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;


Gene Local Context (not to scale): ?

Transcription Units:

Notes:

History:
10/20/97 Gene b3508 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG11400; confirmed by SwissProt match.


References

Arnqvist94: Arnqvist A, Olsen A, Normark S (1994). "Sigma S-dependent growth-phase induction of the csgBA promoter in Escherichia coli can be achieved in vivo by sigma 70 in the absence of the nucleoid-associated protein H-NS." Mol Microbiol 1994;13(6);1021-32. PMID: 7854117

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

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

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

Mates07: Mates AK, Sayad AK, Foster JW (2007). "Products of the Escherichia coli Acid Fitness Island Attenuate Metabolite Stress at Extreme Low pH and Mediate a Cell Density-Dependent Acid Resistance." J Bacteriol 189(7):2759-68. PMID: 17259322

Tucker03: Tucker DL, Tucker N, Ma Z, Foster JW, Miranda RL, Cohen PS, Conway T (2003). "Genes of the GadX-GadW regulon in Escherichia coli." J Bacteriol 185(10);3190-201. PMID: 12730179

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

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."

Yoshida93: Yoshida T, Ueguchi C, Yamada H, Mizuno T (1993). "Function of the Escherichia coli nucleoid protein, H-NS: molecular analysis of a subset of proteins whose expression is enhanced in a hns deletion mutant." Mol Gen Genet 237(1-2);113-22. PMID: 8455549

Other References Related to Gene Regulation

Bordi03: Bordi C, Theraulaz L, Mejean V, Jourlin-Castelli C (2003). "Anticipating an alkaline stress through the Tor phosphorelay system in Escherichia coli." Mol Microbiol 48(1);211-23. PMID: 12657056

De99a: De Biase D, Tramonti A, Bossa F, Visca P (1999). "The response to stationary-phase stress conditions in Escherichia coli: role and regulation of the glutamic acid decarboxylase system." Mol Microbiol 32(6);1198-211. PMID: 10383761

Dudin13: Dudin O, Lacour S, Geiselmann J (2013). "Expression dynamics of RpoS/Crl-dependent genes in Escherichia coli." Res Microbiol 164(8);838-47. PMID: 23867204

Hayes06: Hayes ET, Wilks JC, Sanfilippo P, Yohannes E, Tate DP, Jones BD, Radmacher MD, BonDurant SS, Slonczewski JL (2006). "Oxygen limitation modulates pH regulation of catabolism and hydrogenases, multidrug transporters, and envelope composition in Escherichia coli K-12." BMC Microbiol 6;89. PMID: 17026754

Hirakawa10: Hirakawa H, Hayashi-Nishino M, Yamaguchi A, Nishino K (2010). "Indole enhances acid resistance in Escherichia coli." Microb Pathog 49(3);90-4. PMID: 20470880

Hommais04: Hommais F, Krin E, Coppee JY, Lacroix C, Yeramian E, Danchin A, Bertin P (2004). "GadE (YhiE): a novel activator involved in the response to acid environment in Escherichia coli." Microbiology 150(Pt 1);61-72. PMID: 14702398

Itou09: Itou J, Eguchi Y, Utsumi R (2009). "Molecular mechanism of transcriptional cascade initiated by the EvgS/EvgA system in Escherichia coli K-12." Biosci Biotechnol Biochem 73(4);870-8. PMID: 19352034

Johnson11: Johnson MD, Burton NA, Gutierrez B, Painter K, Lund PA (2011). "RcsB Is Required for Inducible Acid Resistance in Escherichia coli and Acts at gadE-Dependent and -Independent Promoters." J Bacteriol 193(14);3653-6. PMID: 21571995

Marzan13: Marzan LW, Hasan CM, Shimizu K (2013). "Effect of acidic condition on the metabolic regulation of Escherichia coli and its phoB mutant." Arch Microbiol 195(3);161-71. PMID: 23274360

Pesavento12: Pesavento C, Hengge R (2012). "The global repressor FliZ antagonizes gene expression by σS-containing RNA polymerase due to overlapping DNA binding specificity." Nucleic Acids Res 40(11);4783-93. PMID: 22323519

Ruiz08: Ruiz C, McMurry LM, Levy SB (2008). "Role of the multidrug resistance regulator MarA in global regulation of the hdeAB acid resistance operon in Escherichia coli." J Bacteriol 190(4);1290-7. PMID: 18083817

Schneiders04: Schneiders T, Barbosa TM, McMurry LM, Levy SB (2004). "The Escherichia coli transcriptional regulator MarA directly represses transcription of purA and hdeA." J Biol Chem 279(10);9037-42. PMID: 14701822

Shin05: Shin M, Song M, Rhee JH, Hong Y, Kim YJ, Seok YJ, Ha KS, Jung SH, Choy HE (2005). "DNA looping-mediated repression by histone-like protein H-NS: specific requirement of Esigma70 as a cofactor for looping." Genes Dev 19(19);2388-98. PMID: 16204188

Tramonti08: Tramonti A, De Canio M, De Biase D (2008). "GadX/GadW-dependent regulation of the Escherichia coli acid fitness island: transcriptional control at the gadY-gadW divergent promoters and identification of four novel 42 bp GadX/GadW-specific binding sites." Mol Microbiol 70(4);965-82. PMID: 18808381

Weber05: Weber H, Polen T, Heuveling J, Wendisch VF, Hengge R (2005). "Genome-wide analysis of the general stress response network in Escherichia coli: sigmaS-dependent genes, promoters, and sigma factor selectivity." J Bacteriol 187(5);1591-603. PMID: 15716429

Zwir05: Zwir I, Shin D, Kato A, Nishino K, Latifi T, Solomon F, Hare JM, Huang H, Groisman EA (2005). "Dissecting the PhoP regulatory network of Escherichia coli and Salmonella enterica." Proc Natl Acad Sci U S A 102(8);2862-7. PMID: 15703297


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 Fri Nov 28, 2014, biocyc12.