cspB:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

CspB

Synonyms

Qin prophage; cold shock protein[1], B1557[2][1], CspB[2][1] , ECK1551, JW1549, b1557

Product description

Qin prophage; cold shock protein[2]; Qin prophage; cold shock protein; predicted DNA-binding transcriptional regulator[3]

Cold shock protein, Qin prophage; cold shock inducible[4]

EC number (for enzymes)


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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011129

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012156

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002059

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002059

P

Seeded from EcoCyc (v14.0)

complete

GO:0006950

response to stress

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0346

P

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

PMID:10476034[5]

IDA: Inferred from Direct Assay

F

Figure 2

complete

GO:0003697

single-stranded DNA binding

PMID:10476034[5]

IDA: Inferred from Direct Assay

F

Figure 4, Figure 5

complete

GO:0009409

response to cold

PMID:8022261[6]

IDA: Inferred from Direct Assay

P

Figure 5

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

aceE

PMID:15690043[7]

Experiment(s):EBI-879628

Protein

aceF

PMID:15690043[7]

Experiment(s):EBI-879628

Protein

cspA

PMID:15690043[7]

Experiment(s):EBI-879628, EBI-883908, EBI-884189

Protein

dnaN

PMID:15690043[7]

Experiment(s):EBI-879628

Protein

lpdA

PMID:15690043[7]

Experiment(s):EBI-879628, EBI-883908

Protein

rpsG

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

perR

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

ydaE

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

rpsD

PMID:16606699[8]

Experiment(s):EBI-1140146, EBI-1140146

Protein

nadE

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

yhcA

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

rplA

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

rpsC

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

rplD

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

thrA

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

narZ

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

uspG

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

rpsM

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

hchA

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

rplB

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

infB

PMID:16606699[8]

Experiment(s):EBI-1140146

Protein

yghW

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

cspE

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

cspG

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

eno

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

gltA

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

hfq

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

rplC

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

rplL

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

rplV

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

rpsB

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

rpsJ

PMID:15690043[7]

Experiment(s):EBI-883908

Protein

gltA

PMID:19402753[9]

LCMS(ID Probability):99.0

Protein

rpsJ

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

dnaN

PMID:19402753[9]

MALDI(Z-score):26.773337

Protein

cspG

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

hfq

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

cspA

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):22.839343

Protein

cspE

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

yghW

PMID:19402753[9]

LCMS(ID Probability):99.0

Protein

rplL

PMID:19402753[9]

LCMS(ID Probability):99.6

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Notes

selective RNA binding sequence

UUUUU

PMID: 10476034

Figure 1

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MSNKMTGLVK WFNADKGFGF ISPVDGSKDV FVHFSAIQND NYRTLFEGQK VTFSIESGAK
GPAAANVIIT D
Length

71

Mol. Wt

7.716 kDa

pI

7.3 (calculated)

Extinction coefficient

6,990 (calc based on 1 Y, 1 W, and 0 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

4..70

PF00313 'Cold-shock' DNA-binding domain

PMID:19920124[10]

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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=cspB taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16129516

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946091

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005199

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P36995

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12203

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12203

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946091

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002091

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2119

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 Phadtare, S & Inouye, M (1999) Sequence-selective interactions with RNA by CspB, CspC and CspE, members of the CspA family of Escherichia coli. Mol. Microbiol. 33 1004-14 PubMed
  6. ↑ Lee, SJ et al. (1994) Family of the major cold-shock protein, CspA (CS7.4), of Escherichia coli, whose members show a high sequence similarity with the eukaryotic Y-box binding proteins. Mol. Microbiol. 11 833-9 PubMed
  7. ↑ 7.00 7.01 7.02 7.03 7.04 7.05 7.06 7.07 7.08 7.09 7.10 7.11 7.12 7.13 7.14 7.15 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  8. ↑ 8.00 8.01 8.02 8.03 8.04 8.05 8.06 8.07 8.08 8.09 8.10 8.11 8.12 8.13 8.14 8.15 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  9. ↑ 9.0 9.1 9.2 9.3 9.4 9.5 9.6 9.7 9.8 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  10. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

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