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Escherichia coli K-12 substr. MG1655 Polypeptide: predicted acyl-CoA synthetase with NAD(P)-binding Rossmann-fold domain



Gene: fdrA Accession Numbers: G6287 (EcoCyc), b0518, ECK0511

Synonyms: ylbD

Regulation Summary Diagram: ?

Summary:
Using on genome and metabolic context methods, [Smith12] hypothesize that fdrA encodes an oxamate:CoA ligase which continues the degradation of oxamate produced by the anaerobic allantoin degradation pathway. The fate of oxamate is currently unknown.

An N-terminally truncated version of fdrA acts as a multicopy suppressor of the phenotypes of a dominant negative ftsH mutation [Akiyama95]. Overexpression of fdrA leads to reduced motility and decreased levels of biofilm formation [Tenorio03], while a knockout mutation in fdrA leads to repressed swarming motility [Inoue07].

FdrA: "ftsH dominant rescue" [Akiyama95]

Locations: cytosol, inner membrane

Map Position: [545,904 -> 547,571] (11.77 centisomes)
Length: 1668 bp / 555 aa

Molecular Weight of Polypeptide: 58.596 kD (from nucleotide sequence), 60 kD (experimental) [Akiyama95 ]

Unification Links: ASAP:ABE-0001784 , EchoBASE:EB3180 , EcoGene:EG13399 , EcoliWiki:b0518 , ModBase:Q47208 , OU-Microarray:b0518 , PortEco:fdrA , PR:PRO_000022587 , Pride:Q47208 , Protein Model Portal:Q47208 , RefSeq:NP_415051 , RegulonDB:G6287 , SMR:Q47208 , String:511145.b0518 , UniProt:Q47208

Relationship Links: InterPro:IN-FAMILY:IPR003781 , InterPro:IN-FAMILY:IPR005811 , InterPro:IN-FAMILY:IPR016102 , PDB:Structure:3DMY , Pfam:IN-FAMILY:PF00549 , Pfam:IN-FAMILY:PF02629

In Paralogous Gene Group: 100 (4 members)

GO Terms:

Biological Process: GO:0071973 - bacterial-type flagellum-dependent cell motility Inferred from experiment [Inoue07]
GO:0008152 - metabolic process Inferred by computational analysis [GOA01a]
Molecular Function: GO:0003824 - catalytic activity Inferred by computational analysis [GOA01a]
GO:0048037 - cofactor binding Inferred by computational analysis [GOA01a]
Cellular Component: GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]
GO:0005886 - plasma membrane Inferred by computational analysis [UniProtGOA11, UniProtGOA11a]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11a]

Gene Class: UNCLASSIFIED

Essentiality data for fdrA 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 ? 25-Jun-2012 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Transmembrane-Region 331 -> 351
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 476 -> 496
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
Markus Krummenacker on Tue Oct 14, 1997:
Gene object created from Blattner lab Genbank (v. M52) entry.


References

Akiyama95: Akiyama Y, Ito K (1995). "A new Escherichia coli gene, fdrA, identified by suppression analysis of dominant negative FtsH mutations." Mol Gen Genet 249(2);202-8. PMID: 7500942

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

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

Inoue07: Inoue T, Shingaki R, Hirose S, Waki K, Mori H, Fukui K (2007). "Genome-wide screening of genes required for swarming motility in Escherichia coli K-12." J Bacteriol 189(3);950-7. PMID: 17122336

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

Smith12: Smith AA, Belda E, Viari A, Medigue C, Vallenet D (2012). "The CanOE Strategy: Integrating Genomic and Metabolic Contexts across Multiple Prokaryote Genomes to Find Candidate Genes for Orphan Enzymes." PLoS Comput Biol 8(5);e1002540. PMID: 22693442

Tenorio03: Tenorio E, Saeki T, Fujita K, Kitakawa M, Baba T, Mori H, Isono K (2003). "Systematic characterization of Escherichia coli genes/ORFs affecting biofilm formation." FEMS Microbiol Lett 225(1);107-14. PMID: 12900028

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 Fri Nov 28, 2014, biocyc12.