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discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
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discounted EARLY registration ends Dec 31, 2014
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Escherichia coli K-12 substr. MG1655 Polypeptide: predicted inner membrane peptidase



Gene: sohB Accession Numbers: EG10956 (EcoCyc), b1272, ECK1266

Regulation Summary Diagram: ?

Summary:
SohB is an inner membrane protein with similarity to the signal peptide peptidase protease IV [Baird91]. It contains one predicted transmembrane domain; the C terminus is located in the cytoplasm [Daley05]. SohB is subject to posttranslational processing of a signal sequence; the precursor is 39 kDa and the mature protein is 37 kDa [Baird91].

Multicopy expression of sohB suppresses the heat sensitivity of an htrA mutant [Baird91].

SohB: "suppressor of htrA B" [Baird91]

Gene Citations: [Talukder96]

Locations: inner membrane

Map Position: [1,327,356 -> 1,328,405] (28.61 centisomes)
Length: 1050 bp / 349 aa

Molecular Weight of Polypeptide: 39.366 kD (from nucleotide sequence), 37.0 kD (experimental) [Baird91 ]

Unification Links: ASAP:ABE-0004267 , CGSC:31951 , DIP:DIP-35930N , EchoBASE:EB0949 , EcoGene:EG10956 , EcoliWiki:b1272 , ModBase:P0AG14 , OU-Microarray:b1272 , PortEco:sohB , Pride:P0AG14 , Protein Model Portal:P0AG14 , RefSeq:NP_415788 , RegulonDB:EG10956 , SMR:P0AG14 , String:511145.b1272 , UniProt:P0AG14

Relationship Links: InterPro:IN-FAMILY:IPR002142 , InterPro:IN-FAMILY:IPR013703 , Pfam:IN-FAMILY:PF01343 , Pfam:IN-FAMILY:PF08496

In Paralogous Gene Group: 270 (2 members)

Genetic Regulation Schematic: ?

GO Terms:

Biological Process: GO:0006508 - proteolysis Inferred from experiment Inferred by computational analysis [UniProtGOA11a, GOA01a, Baird91]
Molecular Function: GO:0004252 - serine-type endopeptidase activity Inferred by computational analysis [GOA01a]
GO:0008233 - peptidase activity Inferred by computational analysis [UniProtGOA11a, GOA01a]
GO:0008236 - serine-type peptidase activity Inferred by computational analysis [UniProtGOA11a]
GO:0016787 - hydrolase activity Inferred by computational analysis [UniProtGOA11a]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, UniProtGOA11a, GOA01a, Zhang07, Daley05, LopezCampistrou05]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11a]

MultiFun Terms: metabolism degradation of macromolecules proteins/peptides/glycopeptides

Essentiality data for sohB 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 ? 03-Jul-2014 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Transmembrane-Region 9 -> 29
[UniProt10]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Sequence-Conflict 85
[Baird91, UniProt10a]
Alternate sequence: A → R; UniProt: (in Ref. 1; AAA24639);
Sequence-Conflict 90
[Baird91, UniProt10a]
Alternate sequence: A → R; UniProt: (in Ref. 1; AAA24639);
Sequence-Conflict 133 -> 138
[TseDinh86, UniProt10a]
Alternate sequence: PQDQVV → HQPQVA; UniProt: (in Ref. 5);
Sequence-Conflict 143 -> 154
[TseDinh86, UniProt10a]
Alternate sequence: SPGGMVHGYGLA → ALVAWCMLRAG; UniProt: (in Ref. 5);
Sequence-Conflict 164
[TseDinh86, UniProt10a]
Alternate sequence: K → R; UniProt: (in Ref. 5);
Active-Site 178
[UniProt10]
UniProt: Nucleophile; Non-Experimental Qualifier: by similarity;
Sequence-Conflict 245 -> 258
[TseDinh86, UniProt10a]
Alternate sequence: EKFREELNETHQLF → GKIPRRVERNASVV; UniProt: (in Ref. 5);
Sequence-Conflict 296
[Baird91, UniProt10a]
Alternate sequence: T → A; UniProt: (in Ref. 1; AAA24639);


Gene Local Context (not to scale): ?

Transcription Units:

Notes:

History:
10/20/97 Gene b1272 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG10956; confirmed by SwissProt match.


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

Baird91: Baird L, Lipinska B, Raina S, Georgopoulos C (1991). "Identification of the Escherichia coli sohB gene, a multicopy suppressor of the HtrA (DegP) null phenotype." J Bacteriol 173(18);5763-70. PMID: 1885549

Daley05: Daley DO, Rapp M, Granseth E, Melen K, Drew D, von Heijne G (2005). "Global topology analysis of the Escherichia coli inner membrane proteome." Science 308(5726);1321-3. PMID: 15919996

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."

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

Talukder96: Talukder AA, Yanai S, Nitta T, Kato A, Yamada M (1996). "RpoS-dependent regulation of genes expressed at late stationary phase in Escherichia coli." FEBS Lett 1996;386(2-3);177-80. PMID: 8647276

TseDinh86: Tse-Dinh YC, Wang JC (1986). "Complete nucleotide sequence of the topA gene encoding Escherichia coli DNA topoisomerase I." J Mol Biol 191(3);321-31. PMID: 3029379

UniProt10: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-11 released on 2010-11-02 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."

Zhang07: Zhang N, Chen R, Young N, Wishart D, Winter P, Weiner JH, Li L (2007). "Comparison of SDS- and methanol-assisted protein solubilization and digestion methods for Escherichia coli membrane proteome analysis by 2-D LC-MS/MS." Proteomics 7(4);484-93. PMID: 17309111


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 Sat Dec 20, 2014, BIOCYC13B.