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 chlorohydrolase/aminohydrolase



Gene: ssnA Accession Numbers: G7498 (EcoCyc), b2879, ECK2875

Synonyms: ygfL

Regulation Summary Diagram: ?

Summary:
SsnA has similarity to allantoinase enzymes [Xi00]. Purified SsnA does not have isoguanine deaminase activity [Hitchcock11].

An ssnA mutant retains a higher number of viable cells upon entry into stationary phase in rich media than wild type [Yamada99b]. Strains harboring high-copy episomal ssnA show aberrant cell morphology and growth defects, and induction of ssnA expression correlates with decreased viability [Yamada99b]. Increased expression of σE suppresses ssnA-dependent growth inhibition [Nitta00].

Expression of ssnA increases upon entry into stationary phase; expression is negatively regulated by RpoS [Yamada99b].

SsnA: subject to RpoS-dependent negative regulation in stationary phase A [Yamada99b]

Locations: cytosol

Map Position: [3,017,183 -> 3,018,511] (65.03 centisomes)
Length: 1329 bp / 442 aa

Molecular Weight of Polypeptide: 48.842 kD (from nucleotide sequence), 44.0 kD (experimental) [Yamada99b ]

Unification Links: ASAP:ABE-0009452 , DIP:DIP-10923N , EchoBASE:EB2874 , EcoGene:EG13062 , EcoliWiki:b2879 , ModBase:Q46812 , OU-Microarray:b2879 , PortEco:ssnA , PR:PRO_000023991 , Protein Model Portal:Q46812 , RefSeq:NP_417355 , RegulonDB:G7498 , SMR:Q46812 , String:511145.b2879 , UniProt:Q46812

Relationship Links: InterPro:IN-FAMILY:IPR006680 , InterPro:IN-FAMILY:IPR011059 , InterPro:IN-FAMILY:IPR017700 , Pfam:IN-FAMILY:PF01979

GO Terms:

Biological Process: GO:0008152 - metabolic process Inferred by computational analysis [UniProtGOA11, GOA01]
Molecular Function: GO:0016787 - hydrolase activity Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds Inferred by computational analysis [GOA01]
GO:0046872 - metal ion binding Inferred by computational analysis [UniProtGOA11]
Cellular Component: GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

Gene Class: UNCLASSIFIED

Essentiality data for ssnA 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 ? 28-Jan-2014 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Metal-Binding-Site 62
[UniProt10]
UniProt: Zinc; via tele nitrogen; Non-Experimental Qualifier: potential;
Metal-Binding-Site 64
[UniProt10]
UniProt: Zinc; via tele nitrogen; Non-Experimental Qualifier: potential;
Metal-Binding-Site 227
[UniProt10]
UniProt: Zinc; via tele nitrogen; Non-Experimental Qualifier: potential;
Metal-Binding-Site 312
[UniProt10]
UniProt: Zinc; Non-Experimental Qualifier: potential;


Gene Local Context (not to scale): ?

Transcription Units:

Notes:

History:
Peter D. Karp on Wed Jan 18, 2006:
Gene left-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

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."

Hitchcock11: Hitchcock DS, Fedorov AA, Fedorov EV, Dangott LJ, Almo SC, Raushel FM (2011). "Rescue of the orphan enzyme isoguanine deaminase." Biochemistry 50(25);5555-7. PMID: 21604715

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

Nitta00: Nitta T, Nagamitsu H, Murata M, Izu H, Yamada M (2000). "Function of the sigma(E) regulon in dead-cell lysis in stationary-phase Escherichia coli." J Bacteriol 182(18);5231-7. PMID: 10960110

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

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."

Xi00: Xi H, Schneider BL, Reitzer L (2000). "Purine catabolism in Escherichia coli and function of xanthine dehydrogenase in purine salvage." J Bacteriol 182(19);5332-41. PMID: 10986234

Yamada99b: Yamada M, Talukder AA, Nitta T (1999). "Characterization of the ssnA gene, which is involved in the decline of cell viability at the beginning of stationary phase in Escherichia coli." J Bacteriol 1999;181(6);1838-46. PMID: 10074077

Other References Related to Gene Regulation

Barrios99: Barrios H, Valderrama B, Morett E (1999). "Compilation and analysis of sigma(54)-dependent promoter sequences." Nucleic Acids Res 27(22);4305-13. PMID: 10536136

Zhao10a: Zhao K, Liu M, Burgess RR (2010). "Promoter and regulon analysis of nitrogen assimilation factor, sigma54, reveal alternative strategy for E. coli MG1655 flagellar biosynthesis." Nucleic Acids Res 38(4);1273-83. PMID: 19969540


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 Sun Nov 23, 2014, biocyc14.