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Escherichia coli K-12 substr. MG1655 Polypeptide: YcgO CPA1 Transporter



Gene: cvrA Accession Numbers: G6620 (EcoCyc), b1191, ECK1179

Synonyms: ycgO

Regulation Summary Diagram: ?

Summary:
Previously, b4065 (yjcE) and b1191 (ycgO), have been classified as uncharacterized members of the CPA1 family of cation/proton antiport transporters. Based on sequence similarity they have been proposed to be Na+/proton exchangers. Mutation studies were performed in which [Verkhovskaya01] mutants were constructed in which either one or both of these genes were inactivated. None of the mutants showed any change in respiratory-driven Na+ efflux under the Na+ concentrations used (50-500mM). All of the mutant strains maintained Na+ gradients consistent with those in wild type cells. GRF55 (-ycgO) did undergo a substantial growth reduction under low osmolarity conditions. When GRF55 was inoculated into rich medium without salt or into a synthetic low-salt glycerol medium, growth persisted for 2-3 hours and then stopped completely. When the low-salt growth medium was supplemented with 50mM KCL, 50mM LiCl or 200mM mannitol, the mutant cells grew at the wild-type rate. When grown with 20mM KCl or NaCl, growth stopped after three to four generations; the growth resumed after a pause but at a lower rate and the length of the pause was found to be dependent on the salt concentration in the media. The double mutant strain reacted to changes in osmolarity the same as the ycgO deletion mutant. These results indicate that neither b4065 (yjcE) nor b1191 (ycgO) participates in respiration-driven Na+ extrusion. Rather, ycgO is required for growth at low osmolarity where it is essential for cell volume regulation and should accordingly be renamed cvrA [Verkhovskaya01].

Locations: inner membrane

Map Position: [1,239,558 <- 1,241,294] (26.72 centisomes)
Length: 1737 bp / 578 aa

Molecular Weight of Polypeptide: 62.285 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0003999 , EchoBASE:EB3655 , EcoGene:EG13896 , EcoliWiki:b1191 , OU-Microarray:b1191 , PortEco:cvrA , PR:PRO_000022357 , Pride:P76007 , Protein Model Portal:P76007 , RefSeq:NP_415709 , RegulonDB:G6620 , SMR:P76007 , String:511145.b1191 , UniProt:P76007

Relationship Links: InterPro:IN-FAMILY:IPR005170 , InterPro:IN-FAMILY:IPR006037 , InterPro:IN-FAMILY:IPR006153 , InterPro:IN-FAMILY:IPR016166 , InterPro:IN-FAMILY:IPR016169 , InterPro:IN-FAMILY:IPR023729 , Pfam:IN-FAMILY:PF00999 , Pfam:IN-FAMILY:PF02080 , Pfam:IN-FAMILY:PF03471 , Prosite:IN-FAMILY:PS51202 , Smart:IN-FAMILY:SM01091

GO Terms:

Biological Process: GO:0006884 - cell volume homeostasis Inferred from experiment Inferred by computational analysis [GOA01, Verkhovskaya01]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11]
GO:0006811 - ion transport Inferred by computational analysis [UniProtGOA11]
GO:0006813 - potassium ion transport Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0043266 - regulation of potassium ion transport Inferred by computational analysis [GOA06]
GO:0055114 - oxidation-reduction process Inferred by computational analysis [GOA01]
GO:0071805 - potassium ion transmembrane transport Inferred by computational analysis [GOA06]
GO:1902600 - hydrogen ion transmembrane transport Inferred by computational analysis [GOA01]
Molecular Function: GO:0008324 - cation transmembrane transporter activity Inferred by computational analysis [GOA01]
GO:0015297 - antiporter activity Inferred by computational analysis [UniProtGOA11]
GO:0015299 - solute:proton antiporter activity Inferred by computational analysis [GOA01]
GO:0015386 - potassium:proton antiporter activity Inferred by computational analysis [GOA06, GOA01]
GO:0015459 - potassium channel regulator activity Inferred by computational analysis [GOA06]
GO:0016614 - oxidoreductase activity, acting on CH-OH group of donors Inferred by computational analysis [GOA01]
GO:0050660 - flavin adenine dinucleotide binding Inferred by computational analysis [GOA01]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11a, UniProtGOA11, DiazMejia09, Daley05]
GO:0016021 - integral component of membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA01, Verkhovskaya01]
GO:0005887 - integral component of plasma membrane Inferred by computational analysis [GOA06]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure membrane
transport Electrochemical potential driven transporters Porters (Uni-, Sym- and Antiporters)

Essentiality data for cvrA 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]

Sequence Features

Feature Class Location Citations Comment
Transmembrane-Region 6 -> 26
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 30 -> 50
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 58 -> 78
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 87 -> 107
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 119 -> 141
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 156 -> 176
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 183 -> 203
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 216 -> 236
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 237 -> 257
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 270 -> 290
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 293 -> 313
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 334 -> 354
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 363 -> 383
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Conserved-Region 403 -> 485
[UniProt09]
UniProt: RCK C-terminal;


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
Peter D. Karp on Wed Jan 18, 2006:
Gene right-end position adjusted based on analysis performed in the 2005 E. coli annotation update [Riley06 ].
Markus Krummenacker on Tue Oct 14, 1997:
Gene object created from Blattner lab Genbank (v. M52) entry.


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

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

GOA01: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

GOA06: GOA, SIB (2006). "Electronic Gene Ontology annotations created by transferring manual GO annotations between orthologous microbial proteins."

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

Riley06: Riley M, Abe T, Arnaud MB, Berlyn MK, Blattner FR, Chaudhuri RR, Glasner JD, Horiuchi T, Keseler IM, Kosuge T, Mori H, Perna NT, Plunkett G, Rudd KE, Serres MH, Thomas GH, Thomson NR, Wishart D, Wanner BL (2006). "Escherichia coli K-12: a cooperatively developed annotation snapshot--2005." Nucleic Acids Res 34(1);1-9. PMID: 16397293

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

UniProt10: 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 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."

Verkhovskaya01: Verkhovskaya ML, Barquera B, Wikstrom M (2001). "Deletion of one of two Escherichia coli genes encoding putative Na+/H+ exchangers (ycgO) perturbs cytoplasmic alkali cation balance at low osmolarity." Microbiology 147(Pt 11);3005-13. PMID: 11700351


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 Thu Dec 18, 2014, biocyc12.