Escherichia coli K-12 substr. MG1655 Protein: chaperone with DnaK; curved DNA-binding protein

Gene: cbpA Accession Numbers: EG12193 (EcoCyc), b1000, ECK0991

Regulation Summary Diagram: ?

Regulation summary diagram for cbpA

Subunit composition of chaperone with DnaK; curved DNA-binding protein = [CbpA]2
         CbpA monomer = CbpA

CbpA has similarity to DnaJ and functions as a co-chaperone with DnaK in vitro [Ueguchi94, Chae04]. CbpA has been shown to bind to curved DNA; binding is not sequence-specific [Ueguchi94, Azam99]. The CbpA protein is a dimer in solution [Chae04].

cbpA is a multicopy suppressor of dnaJ mutations [Ueguchi94]. A null mutant in cbpA alone shows no obvious phenotype, but in combination with a dnaJ mull mutation, it shows synthetic phenotypes including a growth defect at both high and low temperatures, a cell division defect, and a lambda plasmid replication defect, indicating that the functions of CbpA and DnaJ are closely related [Ueguchi94, Ueguchi95, Wegrzyn96]. In a dnaJ mutant, both CbpA and DjlA are required for solubilization of protein aggregates [Gur04]. rpoD is a multicopy suppressor of the growth defect of the cbpA dnaJ double mutant [Shiozawa96].

SigmaS-dependent transcription of cbpA is induced at the beginning of stationary phase or by growth under phosphate-limiting conditions, but not by heat shock [Yamashino94]. CbpA protein accumulates during late stationary phase [Ali99].

CbpA: "curved DNA-binding protein" [Ueguchi94]

Locations: cytosol, bacterial nucleoid

Map Position: [1,062,078 <- 1,062,998] (22.89 centisomes, 82°)
Length: 921 bp / 306 aa

Molecular Weight of Polypeptide: 34.455 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0003379 , CGSC:31822 , DIP:DIP-9249N , EchoBASE:EB2110 , EcoGene:EG12193 , EcoliWiki:b1000 , Mint:MINT-1219908 , ModBase:P36659 , OU-Microarray:b1000 , PortEco:cbpA , PR:PRO_000022250 , Pride:P36659 , Protein Model Portal:P36659 , RefSeq:NP_415520 , RegulonDB:EG12193 , SMR:P36659 , String:511145.b1000 , Swiss-Model:P36659 , UniProt:P36659

Relationship Links: InterPro:IN-FAMILY:IPR001623 , InterPro:IN-FAMILY:IPR002939 , InterPro:IN-FAMILY:IPR008971 , InterPro:IN-FAMILY:IPR018253 , InterPro:IN-FAMILY:IPR023859 , PDB:Structure:2KQX , PDB:Structure:3UCS , Pfam:IN-FAMILY:PF00226 , Pfam:IN-FAMILY:PF01556 , Prints:IN-FAMILY:PR00625 , Prosite:IN-FAMILY:PS00636 , Prosite:IN-FAMILY:PS50076 , Smart:IN-FAMILY:SM00271

In Paralogous Gene Group: 240 (2 members)

Gene-Reaction Schematic: ?

Gene-Reaction Schematic

Genetic Regulation Schematic: ?

Genetic regulation schematic for cbpA

GO Terms:

Biological Process: GO:0006457 - protein folding Inferred by computational analysis [GOA01a]
Molecular Function: GO:0003681 - bent DNA binding Inferred from experiment Inferred by computational analysis [GOA06, Azam99]
GO:0005515 - protein binding Inferred from experiment [Rajagopala14, Arifuzzaman06, Butland05]
GO:0003677 - DNA binding Inferred by computational analysis [UniProtGOA11a]
GO:0051082 - unfolded protein binding Inferred by computational analysis [GOA01a]
Cellular Component: GO:0005737 - cytoplasm Inferred by computational analysis [UniProtGOA11a, GOA06]
GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]
GO:0009295 - nucleoid Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: information transfer protein related chaperoning, repair (refolding)
information transfer protein related nucleoproteins, basic proteins

Essentiality data for cbpA 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]

Sequence Features

Protein sequence of CbpA monomer with features indicated

Feature Class Location Citations Comment
Conserved-Region 5 -> 69
UniProt: J;
Sequence-Conflict 294 -> 306
[Ueguchi94, UniProt10a]
UniProt: (in Ref. 1; BAA03950);

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram


10/20/97 Gene b1000 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12193; confirmed by SwissProt match.


Ali99: Ali Azam T, Iwata A, Nishimura A, Ueda S, Ishihama A (1999). "Growth phase-dependent variation in protein composition of the Escherichia coli nucleoid." J Bacteriol 181(20);6361-70. PMID: 10515926

Arifuzzaman06: Arifuzzaman M, Maeda M, Itoh A, Nishikata K, Takita C, Saito R, Ara T, Nakahigashi K, Huang HC, Hirai A, Tsuzuki K, Nakamura S, Altaf-Ul-Amin M, Oshima T, Baba T, Yamamoto N, Kawamura T, Ioka-Nakamichi T, Kitagawa M, Tomita M, Kanaya S, Wada C, Mori H (2006). "Large-scale identification of protein-protein interaction of Escherichia coli K-12." Genome Res 16(5);686-91. PMID: 16606699

Azam99: Azam TA, Ishihama A (1999). "Twelve species of the nucleoid-associated protein from Escherichia coli. Sequence recognition specificity and DNA binding affinity." J Biol Chem 274(46);33105-13. PMID: 10551881

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

Butland05: Butland G, Peregrin-Alvarez JM, Li J, Yang W, Yang X, Canadien V, Starostine A, Richards D, Beattie B, Krogan N, Davey M, Parkinson J, Greenblatt J, Emili A (2005). "Interaction network containing conserved and essential protein complexes in Escherichia coli." Nature 433(7025);531-7. PMID: 15690043

Chae04: Chae C, Sharma S, Hoskins JR, Wickner S (2004). "CbpA, a DnaJ homolog, is a DnaK co-chaperone, and its activity is modulated by CbpM." J Biol Chem 279(32);33147-53. PMID: 15184371

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

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

GOA06: GOA, SIB (2006). "Electronic Gene Ontology annotations created by transferring manual GO annotations between orthologous microbial proteins."

Gur04: Gur E, Biran D, Shechter N, Genevaux P, Georgopoulos C, Ron EZ (2004). "The Escherichia coli DjlA and CbpA proteins can substitute for DnaJ in DnaK-mediated protein disaggregation." J Bacteriol 186(21);7236-42. PMID: 15489435

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

Rajagopala14: Rajagopala SV, Sikorski P, Kumar A, Mosca R, Vlasblom J, Arnold R, Franca-Koh J, Pakala SB, Phanse S, Ceol A, Hauser R, Siszler G, Wuchty S, Emili A, Babu M, Aloy P, Pieper R, Uetz P (2014). "The binary protein-protein interaction landscape of Escherichia coli." Nat Biotechnol 32(3);285-90. PMID: 24561554

Shiozawa96: Shiozawa T, Ueguchi C, Mizuno T (1996). "The rpoD gene functions as a multicopy suppressor for mutations in the chaperones, CbpA, DnaJ and DnaK, in Escherichia coli." FEMS Microbiol Lett 138(2-3);245-50. PMID: 9026454

Ueguchi94: Ueguchi C, Kakeda M, Yamada H, Mizuno T (1994). "An analogue of the DnaJ molecular chaperone in Escherichia coli." Proc Natl Acad Sci U S A 91(3);1054-8. PMID: 8302830

Ueguchi95: Ueguchi C, Shiozawa T, Kakeda M, Yamada H, Mizuno T (1995). "A study of the double mutation of dnaJ and cbpA, whose gene products function as molecular chaperones in Escherichia coli." J Bacteriol 177(13);3894-6. PMID: 7601860

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

Wegrzyn96: Wegrzyn A, Taylor K, Wegrzyn G (1996). "The cbpA chaperone gene function compensates for dnaJ in lambda plasmid replication during amino acid starvation of Escherichia coli." J Bacteriol 178(19);5847-9. PMID: 8824642

Yamashino94: Yamashino T, Kakeda M, Ueguchi C, Mizuno T (1994). "An analogue of the DnaJ molecular chaperone whose expression is controlled by sigma s during the stationary phase and phosphate starvation in Escherichia coli." Mol Microbiol 1994;13(3);475-83. PMID: 7997164

Other References Related to Gene Regulation

Chenoweth08: Chenoweth MR, Wickner S (2008). "Complex regulation of the DnaJ homolog CbpA by the global regulators sigmaS and Lrp, by the specific inhibitor CbpM, and by the proteolytic degradation of CbpM." J Bacteriol 190(15);5153-61. PMID: 18502857

Chintakayala13: Chintakayala K, Singh SS, Rossiter AE, Shahapure R, Dame RT, Grainger DC (2013). "E. coli Fis protein insulates the cbpA gene from uncontrolled transcription." PLoS Genet 9(1);e1003152. PMID: 23341772

Singh11b: Singh SS, Typas A, Hengge R, Grainger DC (2011). "Escherichia coli {sigma}70 senses sequence and conformation of the promoter spacer region." Nucleic Acids Res. PMID: 21398630

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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
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