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 Polypeptide: predicted lipoprotein



Gene: yaeF Accession Numbers: EG12138 (EcoCyc), b0193, ECK0193

Synonyms: yaeK

Regulation Summary Diagram: ?

Summary:
The protein is a member of a family of bacterial proteins (the YaeF/YiiX family) that defines one subset of the NlpC/P60 protein superfamily [Anantharaman03]. Putative catalytic residues have been identified, but precise activity has not been determined [Anantharaman03]. The catalytic domain shows a circular permutation in the location of conserved residues [Anantharaman03].

Citations: [Serres01]

Locations: periplasmic space, inner membrane

Map Position: [216,179 <- 217,003] (4.66 centisomes)
Length: 825 bp / 274 aa

Molecular Weight of Polypeptide: 29.912 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0000655 , EchoBASE:EB2059 , EcoGene:EG12138 , EcoliWiki:b0193 , OU-Microarray:b0193 , PortEco:yaeF , Protein Model Portal:P37056 , RefSeq:NP_414735 , RegulonDB:EG12138 , SMR:P37056 , String:511145.b0193 , UniProt:P37056

Relationship Links: Prosite:IN-FAMILY:PS51257

GO Terms:

Biological Process: GO:0006508 - proteolysis Inferred by computational analysis [UniProtGOA11a]
Molecular Function: GO:0008233 - peptidase activity Inferred by computational analysis [UniProtGOA11a]
GO:0008234 - cysteine-type peptidase activity Inferred by computational analysis [UniProtGOA11a]
GO:0016787 - hydrolase activity Inferred by computational analysis [UniProtGOA11a]
Cellular Component: GO:0005886 - plasma membrane Inferred by computational analysis [UniProtGOA11, UniProtGOA11a]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a]
GO:0030288 - outer membrane-bounded periplasmic space Inferred by computational analysis [DiazMejia09]

Gene Class: ORFs

Essentiality data for yaeF 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
Signal-Sequence 1 -> 20
[UniProt10a]
UniProt: Non-Experimental Qualifier: potential;
Lipid-Binding-Site 21
[UniProt10a]
UniProt: N-palmitoyl cysteine; Non-Experimental Qualifier: potential;
Chain 21 -> 274
[UniProt09]
UniProt: Uncharacterized lipoprotein yaeF;
Active-Site 207
[UniProt11a]
UniProt: Nucleophile; Non-Experimental Qualifier: by similarity.
Active-Site 257
[UniProt11a]
UniProt: Proton acceptor; Non-Experimental Qualifier: by similarity.


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 ].
Peter D. Karp on Thu Jan 16, 2003:
Predicted gene function revised as a result of E. coli genome reannotation by Serres et al. [Serres01 ].
10/20/97 Gene b0193 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12138; confirmed by SwissProt match.


References

Anantharaman03: Anantharaman V, Aravind L (2003). "Evolutionary history, structural features and biochemical diversity of the NlpC/P60 superfamily of enzymes." Genome Biol 2003;4(2);R11. PMID: 12620121

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

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

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

Serres01: Serres MH, Gopal S, Nahum LA, Liang P, Gaasterland T, Riley M (2001). "A functional update of the Escherichia coli K-12 genome." Genome Biol 2(9);RESEARCH0035. PMID: 11574054

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

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

UniProt11a: UniProt Consortium (2011). "UniProt version 2011-11 released on 2011-11-22 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."


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 Wed Nov 26, 2014, BIOCYC14B.