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



Gene: ygdR Accession Numbers: G7461 (EcoCyc), b2833, ECK2829

Regulation Summary Diagram: ?

Summary:
No information about this protein was found by a literature search conducted on June 21, 2007.

Locations: periplasmic space, inner membrane

Map Position: [2,969,293 -> 2,969,511] (64.0 centisomes)
Length: 219 bp / 72 aa

Molecular Weight of Polypeptide: 7.877 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0009293 , EchoBASE:EB2886 , EcoGene:EG13076 , EcoliWiki:b2833 , OU-Microarray:b2833 , PortEco:ygdR , Protein Model Portal:P65294 , RefSeq:NP_417310 , RegulonDB:G7461 , SMR:P65294 , String:511145.b2833 , UniProt:P65294

Relationship Links: InterPro:IN-FAMILY:IPR010305 , InterPro:IN-FAMILY:IPR010920 , PDB:Structure:2JN0 , PDB:Structure:3FIF , Pfam:IN-FAMILY:PF06004 , Prosite:IN-FAMILY:PS51257

GO Terms:

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 Conserved-Hypothetical-ORFs

Essentiality data for ygdR 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]

Credits:
Last-Curated ? 21-Jun-2007 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Signal-Sequence 1 -> 19
[UniProt10a]
UniProt: Non-Experimental Qualifier: potential;
Lipid-Binding-Site 20
[UniProt10a]
UniProt: N-palmitoyl cysteine; Non-Experimental Qualifier: potential;
Chain 20 -> 72
[UniProt09]
UniProt: Uncharacterized lipoprotein ygdR;


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
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 ].
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

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

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.

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 Thu Dec 18, 2014, BIOCYC13A.