cspG:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

cspG

Gene Synonym(s)

ECK0980, b0990, JW0974[1], cspI, JW0974

Product Desc.

cold shock protein CspG[2][3]

Cold shock protein homolog, cold-inducible[4]

Product Synonyms(s)

DNA-binding transcriptional regulator[1], B0990[2][1], CspG[2][1] , cspI, ECK0980, JW0974, b0990

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): cspG[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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The cspABEG deletion BX04 is cold-sensitive and forms filaments at 15C (Xia, 2001).[4]



Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

cspG

Mnemonic

Cold shock protein

Synonyms

ECK0980, b0990, JW0974[1], cspI, JW0974

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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

22.65 minutes 

MG1655: 1050684..1050896
<gbrowseImage> name=NC_000913:1050684..1050896 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1067752..1067964
<gbrowseImage> name=NC_012967:1067752..1067964 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 953652..953864
<gbrowseImage> name=NC_012759:953652..953864 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1051883..1052095
<gbrowseImage> name=NC_007779:1051883..1052095 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1104612..1104824
<gbrowseImage> name=NC_010473:1104612..1104824 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔcspG (Keio:JW0974)

deletion

deletion

PMID:16738554

Shigen
CGSC8963[5]

ΔcspG733::kan

PMID:16738554

CGSC:100430


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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW0974

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCTAATAAAATGACTGGTTT

Primer 2:CCGAGCGTAACAACGTTCGCTGC

4H11

Kohara Phage

Genobase

PMID:3038334

2F1

Kohara Phage

Genobase

PMID:3038334

zcb-3059::Tn10

Linked marker

CAG12094 = CGSC7358[5]

est. P1 cotransduction: 11% [6]

zcc-282::Tn10

Linked marker

CAG18466 = CGSC7359[5]

est. P1 cotransduction: 66% [6]

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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

EcoCyc

EcoCyc:G6511

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14243

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003111

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945591

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3993

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003346

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Product(s)

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Nomenclature

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

Standard name

CspG

Synonyms

DNA-binding transcriptional regulator[1], B0990[2][1], CspG[2][1] , cspI, ECK0980, JW0974, b0990

Product description

cold shock protein CspG[2][3]

Cold shock protein homolog, cold-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:0009409

response to cold

PMID:8631696

IDA: Inferred from Direct Assay

P

Figure 3

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

amyA

PMID:15690043

Experiment(s):EBI-883726

Protein

rplC

PMID:15690043

Experiment(s):EBI-883726

Protein

rplL

PMID:15690043

Experiment(s):EBI-883726

Protein

rplM

PMID:15690043

Experiment(s):EBI-883726

Protein

rplV

PMID:15690043

Experiment(s):EBI-883726

Protein

rpsB

PMID:15690043

Experiment(s):EBI-883726

Protein

rpsE

PMID:15690043

Experiment(s):EBI-883726

Protein

rplA

PMID:16606699

Experiment(s):EBI-1138538

Protein

hchA

PMID:16606699

Experiment(s):EBI-1138538

Protein

rpsD

PMID:16606699

Experiment(s):EBI-1138538

Protein

rpsE

PMID:16606699

Experiment(s):EBI-1138538

Protein

rplB

PMID:16606699

Experiment(s):EBI-1138538

Protein

kdpB

PMID:16606699

Experiment(s):EBI-1138538

Protein

rpsG

PMID:16606699

Experiment(s):EBI-1138538

Protein

rpsI

PMID:16606699

Experiment(s):EBI-1138538

Protein

rpsM

PMID:16606699

Experiment(s):EBI-1138538

Protein

uspG

PMID:16606699

Experiment(s):EBI-1138538

Protein

rpsC

PMID:16606699

Experiment(s):EBI-1138538

Protein

rplD

PMID:16606699

Experiment(s):EBI-1138538

Protein

amyA

PMID:19402753

LCMS(ID Probability):99.0

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Notes

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 ITPDDGSKDV FVHFTAIQSN EFRTLNENQK VEFSIEQGQR
GPAAANVVTL
Length

70

Mol. Wt

7.78 kDa

pI

5.9 (calculated)

Extinction coefficient

5,500 (calc based on 0 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

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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=cspG 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:16128956

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945591

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003346

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A978

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6511

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14243

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945591

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003111

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3993

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MC4100

1.39E+03

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

Ecoli K-12

0.06+/-0.095

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.054245283

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

162

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

73

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

604

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

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Notes

Transcription and Transcriptional Regulation

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<protect>

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

Transcription unit(s)

cspG

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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:1050664..1050704 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b0990 (EcoliWiki Page)

NCBI GEO profiles for cspG

microarray

GenExpDB:b0990 (EcoliWiki Page)

Summary of data for cspG from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (1050323..1050749) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ02; Well:G1[7]

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Notes

Accessions Related to cspG Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G6511

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3993

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0990

EcoGene

EcoGene:EG14243

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003111

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003346

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Evolution

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Homologs in Other Organisms

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

Organism Homologs (Statistics) Comments

Anopheles gambiae

  • ENSANGP00000011455 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000035713 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT4G36020 (score: 1.000; bootstrap: 100%)
  • AT4G38680 (score: 1.000; bootstrap: 100%)
  • AT2G21060 (score: 1.000; bootstrap: 100%)
  • AT2G17870 (score: 0.545)
  • AT5G46730 (score: 0.091)
  • AT2G30560 (score: 0.091)
  • AT4G01985 (score: 0.067)
  • AT2G05440 (score: 0.062)
  • AT2G21660 (score: 0.051)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000023094 (score: 1.000; bootstrap: 80%)
  • ENSBTAP00000012733 (score: 1.000; bootstrap: 80%)
  • ENSBTAP00000023101 (score: 0.327)
  • ENSBTAP00000032304 (score: 0.166)
  • ENSBTAP00000005429 (score: 0.145)
  • ENSBTAP00000016451 (score: 0.071)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00025935 (score: 1.000; bootstrap: 100%)
  • WBGene00032931 (score: 1.000; bootstrap: 100%)
  • WBGene00033626 (score: 1.000; bootstrap: 100%)
  • WBGene00035267 (score: 1.000; bootstrap: 100%)
  • WBGene00025320 (score: 1.000; bootstrap: 100%)
  • WBGene00037745 (score: 0.203)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00000474 (score: 1.000; bootstrap: 100%)
  • WBGene00000472 (score: 1.000; bootstrap: 100%)
  • WBGene00003014 (score: 1.000; bootstrap: 100%)
  • WBGene00000473 (score: 0.667)
  • WBGene00000475 (score: 0.165)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000014863 (score: 1.000; bootstrap: 78%)
  • ENSCAFP00000025464 (score: 1.000; bootstrap: 78%)
  • ENSCAFP00000019752 (score: 1.000; bootstrap: 79%)
  • ENSCAFP00000003704 (score: 1.000; bootstrap: 81%)
  • ENSCAFP00000001245 (score: 1.000; bootstrap: 78%)
  • ENSCAFP00000023761 (score: 0.321)
  • ENSCAFP00000024297 (score: 0.241)
  • ENSCAFP00000024295 (score: 0.237)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000012813 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-000629-3 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-592 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040516-5 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0035626 (score: 1.000; bootstrap: 63%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA14466-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000007728 (score: 1.000; bootstrap: 78%)
  • ENSGALP00000023766 (score: 0.148)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000350456 (score: 0.892)
  • ENSP00000228251 (score: 1.000; bootstrap: 77%)
  • ENSP00000163282 (score: 1.000; bootstrap: 78%)
  • ENSP00000347863 (score: 0.769)
  • ENSP00000331292 (score: 0.426)
  • ENSP00000007699 (score: 0.272)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000022751 (score: 0.705)
  • ENSMMUP00000029562 (score: 1.000; bootstrap: 78%)
  • ENSMMUP00000017257 (score: 1.000; bootstrap: 79%)
  • ENSMMUP00000029908 (score: 0.233)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000022758 (score: 0.366)
  • ENSMODP00000021480 (score: 1.000; bootstrap: 77%)
  • ENSMODP00000021948 (score: 0.294)

From Inparanoid:20070104

Mus musculus

  • MGI:2137670 (score: 1.000; bootstrap: 100%)
  • MGI:99146 (score: 1.000; bootstrap: 100%)
  • MGI:1096372 (score: 0.292)
  • MGI:1925802 (score: 0.289)

From Inparanoid:20070104

Oryza gramene

  • Q6YUR8 (score: 1.000; bootstrap: 94%)
  • Q75QN8 (score: 1.000; bootstrap: 84%)
  • Q8LPA7 (score: 0.904)
  • Q75QN9 (score: 0.694)
  • Q84UR8 (score: 0.521)
  • Q69UP6 (score: 0.121)
  • Q69T79 (score: 0.068)
  • Q6ZL79 (score: 0.057)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000044294 (score: 0.815)
  • ENSPTRP00000010950 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000008009 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000001059 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000014791 (score: 0.276)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000044956 (score: 0.853)
  • ENSRNOP00000048698 (score: 1.000; bootstrap: 78%)
  • ENSRNOP00000007427 (score: 1.000; bootstrap: 79%)
  • ENSRNOP00000045908 (score: 1.000; bootstrap: 81%)
  • ENSRNOP00000047897 (score: 0.664)
  • ENSRNOP00000023003 (score: 0.293)
  • ENSRNOP00000050512 (score: 0.283)
  • ENSRNOP00000047157 (score: 0.164)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000146056 (score: 1.000; bootstrap: 75%)
  • NEWSINFRUP00000158886 (score: 0.194)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00022541001 (score: 1.000; bootstrap: 100%)
  • GSTENP00023133001 (score: 1.000; bootstrap: 100%)
  • GSTENP00018633001 (score: 0.211)
  • GSTENP00019221001 (score: 0.185)
  • GSTENP00038594001 (score: 0.095)
  • GSTENP00009564001 (score: 0.063)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000029443 (score: 1.000; bootstrap: 79%)
  • ENSXETP00000035457 (score: 0.276)

From Inparanoid:20070104

Shigella flexneri

CSPG

From SHIGELLACYC

E. coli O157

CSPG

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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

Database Accession Notes

Pfam (EcoliWiki Page)

PF00313 'Cold-shock' DNA-binding domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:50249

EcoCyc

EcoCyc:G6511

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14243

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003111

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3993

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003346

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 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 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

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