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discounted EARLY registration ends Dec 31, 2014
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Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
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for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
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for maintenance.
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Escherichia coli K-12 substr. MG1655 Polypeptide: predicted phosphoribulokinase



Gene: prkB Accession Numbers: EG12365 (EcoCyc), b3355, ECK3343

Synonyms: yhfF

Regulation Summary Diagram: ?

Summary:
No information about this protein was found by a literature search conducted on April 1, 2013.

Locations: cytosol

Map Position: [3,482,512 -> 3,483,381] (75.06 centisomes)
Length: 870 bp / 289 aa

Molecular Weight of Polypeptide: 32.344 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0010962 , EchoBASE:EB2268 , EcoGene:EG12365 , EcoliWiki:b3355 , Mint:MINT-1286728 , ModBase:P0AEX5 , OU-Microarray:b3355 , PortEco:prkB , Pride:P0AEX5 , Protein Model Portal:P0AEX5 , RefSeq:NP_417814 , RegulonDB:EG12365 , SMR:P0AEX5 , String:511145.b3355 , Swiss-Model:P0AEX5 , UniProt:P0AEX5

Relationship Links: InterPro:IN-FAMILY:IPR006082 , InterPro:IN-FAMILY:IPR006083 , InterPro:IN-FAMILY:IPR027417 , Pfam:IN-FAMILY:PF00485 , Prints:IN-FAMILY:PR00478 , Prosite:IN-FAMILY:PS00567

GO Terms:

Biological Process: GO:0005975 - carbohydrate metabolic process Inferred by computational analysis [GOA01]
GO:0008152 - metabolic process Inferred by computational analysis [GOA01]
GO:0016310 - phosphorylation Inferred by computational analysis [UniProtGOA11]
Molecular Function: GO:0000166 - nucleotide binding Inferred by computational analysis [UniProtGOA11]
GO:0005524 - ATP binding Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0008974 - phosphoribulokinase activity Inferred by computational analysis [GOA01a, GOA01]
GO:0016301 - kinase activity Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0016740 - transferase activity Inferred by computational analysis [UniProtGOA11]
Cellular Component: GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

Gene Class: ORFs Conserved-ORFs

Essentiality data for prkB 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 ? 01-Apr-2013 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Nucleotide-Phosphate-Binding-Region 12 -> 20
[UniProt10]
UniProt: ATP; Non-Experimental Qualifier: by similarity;
Sequence-Conflict 250
[Bhasin91, UniProt10a]
Alternate sequence: Q → L; UniProt: (in Ref. 3);


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
10/20/97 Gene b3355 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12365; 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

Bhasin91: Bhasin R, Freundlich M (1991). "The nucleotide sequence of the Escherichia coli crp divergent RNA and an overlapping ORF." Biochim Biophys Acta 1129(1);109-11. PMID: 1756168

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."

GOA01a: GOA, MGI (2001). "Gene Ontology annotation based on Enzyme Commission mapping." Genomics 74;121-128.

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

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 manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

Other References Related to Gene Regulation

MendozaVargas09: Mendoza-Vargas A, Olvera L, Olvera M, Grande R, Vega-Alvarado L, Taboada B, Jimenez-Jacinto V, Salgado H, Juarez K, Contreras-Moreira B, Huerta AM, Collado-Vides J, Morett E (2009). "Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli." PLoS One 4(10);e7526. PMID: 19838305


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 Dec 21, 2014, BIOCYC13B.