Escherichia coli K-12 substr. MG1655 Polypeptide: conserved protein

Gene: yjdM Accession Numbers: EG10711 (EcoCyc), b4108, ECK4101

Synonyms: phnA

Regulation Summary Diagram: ?

Regulation summary diagram for yjdM

The phn genes of Escherichia coli B have been cloned [Chen90a]. PhnA is not involved in phosphonate metabolism in E. coli B [Metcalf93a].

PhnA has similarity to a Helicobacter pylori protein [Manos98].

Regulation has been described in E. coli B [Chen90a].

Locations: cytosol

Map Position: [4,324,422 <- 4,324,757] (93.21 centisomes, 336°)
Length: 336 bp / 111 aa

Molecular Weight of Polypeptide: 12.345 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0013451 , DIP:DIP-48079N , EchoBASE:EB0705 , EcoGene:EG10711 , EcoliWiki:b4108 , OU-Microarray:b4108 , PortEco:yjdM , PR:PRO_000023530 , Pride:P0AFJ1 , Protein Model Portal:P0AFJ1 , RefSeq:NP_418532 , RegulonDB:EG10711 , SMR:P0AFJ1 , String:511145.b4108 , UniProt:P0AFJ1

Relationship Links: InterPro:IN-FAMILY:IPR004624 , InterPro:IN-FAMILY:IPR013987 , InterPro:IN-FAMILY:IPR013988 , Pfam:IN-FAMILY:PF03831 , Pfam:IN-FAMILY:PF08274

GO Terms:

Cellular Component: GO:0005829 - cytosol Inferred from experiment [Ishihama08, LopezCampistrou05]

MultiFun Terms: regulation

Essentiality data for yjdM 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]

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Unit:

Transcription-unit diagram


10/20/97 Gene b4108 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG10711; confirmed by SwissProt match.


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

Chen90a: Chen CM, Ye QZ, Zhu ZM, Wanner BL, Walsh CT (1990). "Molecular biology of carbon-phosphorus bond cleavage. Cloning and sequencing of the phn (psiD) genes involved in alkylphosphonate uptake and C-P lyase activity in Escherichia coli B." J Biol Chem 265(8);4461-71. PMID: 2155230

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

Ishihama08: Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ, Frishman D (2008). "Protein abundance profiling of the Escherichia coli cytosol." BMC Genomics 9;102. PMID: 18304323

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

Manos98: Manos J, Kolesnikow T, Hazell SL (1998). "An investigation of the molecular basis of the spontaneous occurrence of a catalase-negative phenotype in Helicobacter pylori." Helicobacter 3(1);28-38. PMID: 9546115

Metcalf93a: Metcalf WW, Wanner BL (1993). "Evidence for a fourteen-gene, phnC to phnP locus for phosphonate metabolism in Escherichia coli." Gene 129(1);27-32. PMID: 8335257

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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
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