Escherichia coli K-12 substr. MG1655 Polypeptide: Qin prophage; cold shock protein

Gene: cspF Accession Numbers: EG12205 (EcoCyc), b1558, ECK1552

Regulation Summary Diagram: ?

Regulation summary diagram for cspF

CspF belongs to the family of cold shock proteins [Yamanaka98].

Locations: cytosol

Map Position: [1,639,879 -> 1,640,091] (35.34 centisomes, 127°)
Length: 213 bp / 70 aa

Molecular Weight of Polypeptide: 7.563 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0005205 , EchoBASE:EB2121 , EcoGene:EG12205 , EcoliWiki:b1558 , ModBase:P0A976 , OU-Microarray:b1558 , PortEco:cspF , Pride:P0A976 , Protein Model Portal:P0A976 , RefSeq:NP_416076 , RegulonDB:EG12205 , SMR:P0A976 , String:511145.b1558 , Swiss-Model:P0A976 , UniProt:P0A976

Relationship Links: InterPro:IN-FAMILY:IPR002059 , InterPro:IN-FAMILY:IPR011129 , InterPro:IN-FAMILY:IPR012156 , InterPro:IN-FAMILY:IPR012340 , InterPro:IN-FAMILY:IPR019844 , Pfam:IN-FAMILY:PF00313 , Prosite:IN-FAMILY:PS00352 , Smart:IN-FAMILY:SM00357

GO Terms:

Biological Process: GO:0006351 - transcription, DNA-templated Inferred by computational analysis [UniProtGOA11]
GO:0006355 - regulation of transcription, DNA-templated Inferred by computational analysis [UniProtGOA11, GOA01]
Molecular Function: GO:0003676 - nucleic acid binding Inferred by computational analysis [GOA01]
GO:0003677 - DNA binding Inferred by computational analysis [UniProtGOA11, GOA01]
Cellular Component: GO:0005737 - cytoplasm Inferred by computational analysis [UniProtGOA11a, UniProtGOA11]
GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

MultiFun Terms: extrachromosomal prophage genes and phage related functions

Essentiality data for cspF 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]

Curated 31-Jan-2006 by Shearer A , SRI International
Last-Curated ? 05-Sep-2006 by Keseler I , SRI International

Sequence Features

Protein sequence of Qin prophage; cold shock protein with features indicated

Feature Class Location Citations Comment
Conserved-Region 7 -> 67
UniProt: CSD;

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram


10/20/97 Gene b1558 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12205; confirmed by SwissProt match.


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."

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

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

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

UniProtGOA11a: UniProt-GOA (2011). "Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries."

Yamanaka98: Yamanaka K, Fang L, Inouye M (1998). "The CspA family in Escherichia coli: multiple gene duplication for stress adaptation." Mol Microbiol 27(2);247-55. PMID: 9484881

Other References Related to Gene Regulation

Hou12: Hou Z, Fink RC, Black EP, Sugawara M, Zhang Z, Diez-Gonzalez F, Sadowsky MJ (2012). "Gene expression profiling of Escherichia coli in response to interactions with the lettuce rhizosphere." J Appl Microbiol 113(5);1076-86. PMID: 22830299

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 19.0 on Thu Oct 8, 2015, biocyc13.