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

Gene: yjjV Accession Numbers: G7952 (EcoCyc), b4378, ECK4370

Regulation Summary Diagram: ?

Regulation summary diagram for yjjV

A tatD ycfH yjjV triple mutant does not exhibit phenotypes suggesting involvement of these proteins in the Sec-independent protein export system in which TatA, TatB, and TatC participate [Wexler00].

YcfH and YjjV have similarity to the TatD DNase [Wexler00].

Locations: cytosol

Map Position: [4,611,504 -> 4,612,283] (99.39 centisomes, 358°)
Length: 780 bp / 259 aa

Molecular Weight of Polypeptide: 28.909 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0014356 , DIP:DIP-12661N , EchoBASE:EB2483 , EcoGene:EG12598 , EcoliWiki:b4378 , Mint:MINT-1227009 , ModBase:P39408 , OU-Microarray:b4378 , PortEco:yjjV , Pride:P39408 , Protein Model Portal:P39408 , RefSeq:YP_026291 , RegulonDB:G7952 , SMR:P39408 , String:511145.b4378 , UniProt:P39408

Relationship Links: InterPro:IN-FAMILY:IPR001130 , InterPro:IN-FAMILY:IPR018228 , Panther:IN-FAMILY:PTHR10060 , PDB:Structure:1ZZM , Pfam:IN-FAMILY:PF01026 , Prosite:IN-FAMILY:PS01090 , Prosite:IN-FAMILY:PS01091 , Prosite:IN-FAMILY:PS01137

In Paralogous Gene Group: 255 (4 members)

GO Terms:

Biological Process: GO:0006308 - DNA catabolic process Inferred by computational analysis [Gaudet10]
GO:0090305 - nucleic acid phosphodiester bond hydrolysis Inferred by computational analysis [UniProtGOA11a]
Molecular Function: GO:0004518 - nuclease activity Inferred by computational analysis [UniProtGOA11a]
GO:0004536 - deoxyribonuclease activity Inferred by computational analysis [Gaudet10]
GO:0016787 - hydrolase activity Inferred by computational analysis [UniProtGOA11a]
GO:0016888 - endodeoxyribonuclease activity, producing 5'-phosphomonoesters Inferred by computational analysis [GOA01]
GO:0046872 - metal ion binding Inferred by computational analysis [UniProtGOA11a]
Cellular Component: GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

Gene Class: ORFs

Essentiality data for yjjV knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 1]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 2]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 1]

Sequence Features

Protein sequence of predicted DNase with features indicated

Feature Class Location Citations Comment
Metal-Binding-Site 9
UniProt: Divalent metal cation 1.
Metal-Binding-Site 11
UniProt: Divalent metal cation 1.
Metal-Binding-Site 97
UniProt: Divalent metal cation 1.
Metal-Binding-Site 133
UniProt: Divalent metal cation 2.
Metal-Binding-Site 157
UniProt: Divalent metal cation 2.
Metal-Binding-Site 207
UniProt: Divalent metal cation 1.

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Unit:

Transcription-unit diagram


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 ].
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.


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

Gaudet10: Gaudet P, Livstone M, Thomas P (2010). "Annotation inferences using phylogenetic trees." PMID: 19578431

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

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

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

UniProt15: UniProt Consortium (2015). "UniProt version 2015-01 released on 2015-01-16 00:00:00." Database.

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

Wexler00: Wexler M, Sargent F, Jack RL, Stanley NR, Bogsch EG, Robinson C, Berks BC, Palmer T (2000). "TatD is a cytoplasmic protein with DNase activity. No requirement for TatD family proteins in sec-independent protein export." J Biol Chem 2000;275(22);16717-22. PMID: 10747959

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 Tue Oct 13, 2015, biocyc13.