cspA: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

cspA

Gene Synonym(s)

ECK3543, b3556, JW3525[1], JW3525

Product Desc.

CspA transcriptional activator[2][3]

Cold-inducible RNA chaperone and anti-terminator; aids gene expression at low temperature; cold shock protein CS7.4; binds ssRNA and ssDNA[4]

Product Synonyms(s)

major cold shock protein[1], B3556[2][1], CspA[2][1], major cold shock protein 7.4[2][1], CS7.4[2][1], F10.6[2][1], cold shock protein CspA[2][1] , ECK3543, JW3525, b3556

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): cspA[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). A cspA deletion grows slow below 8C (as enabled by transgenic Oleispira antarctica Cpn10/60). CspA is similar to Y-box DNA binding proteins of eukaryotes. Mutant has increased aggregation. Binds TrxA (Kumar, 2004).[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

cspA

Mnemonic

Cold shock protein

Synonyms

ECK3543, b3556, JW3525[1], JW3525

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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

80.14 minutes 

MG1655: 3718072..3718284
<gbrowseImage> name=NC_000913:3718072..3718284 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3650507..3650719
<gbrowseImage> name=NC_012967:3650507..3650719 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3606398..3606610
<gbrowseImage> name=NC_012759:3606398..3606610 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3920366..3920154
<gbrowseImage> name=NC_007779:3920154..3920366 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3815649..3815861
<gbrowseImage> name=NC_010473:3815649..3815861 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

Coding Start (SO:0000323)

MG1655

3718075

Edman degradation

PMID:2404279


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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

ΔcspA (Keio:JW3525)

deletion

deletion

PMID:16738554

Shigen
CGSC10603[5]

cspA::Tn5KAN-I-SceI (FB21279)

Insertion at nt 99 in Plus orientation

PMID:15262929

E. coli Genome Project:FB21279

does not contain pKD46

cspA::Tn5KAN-I-SceI (FB21280)

Insertion at nt 99 in Plus orientation

PMID:15262929

E. coli Genome Project:FB21280

contains pKD46

ΔcspA740::kan

PMID:16738554

CGSC:100420


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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

JW3525

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCCGGTAAAATGACTGGTAT

Primer 2:CCaAGGCTGGTTACGTTACCAGC

9F6

Kohara Phage

Genobase

PMID:3038334

zhg-50::Tn10

Linked marker

CAG18450 = CGSC7450[5]

est. P1 cotransduction: % [6]
Synonyms:zhf-50::Tn10, zhf-5::Tn10

zic-4901::Tn10

Linked marker

CAG18492 = CGSC7457[5]

est. P1 cotransduction: % [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:EG10166

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10166

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000162

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948070

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0164

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011616

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

CspA

Synonyms

major cold shock protein[1], B3556[2][1], CspA[2][1], major cold shock protein 7.4[2][1], CS7.4[2][1], F10.6[2][1], cold shock protein CspA[2][1] , ECK3543, JW3525, b3556

Product description

CspA transcriptional activator[2][3]

Cold-inducible RNA chaperone and anti-terminator; aids gene expression at low temperature; cold shock protein CS7.4; binds ssRNA and ssDNA[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:0009409

response to cold

PMID:3553157

IEP: Inferred from Expression Pattern

P

complete

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:0003697

single-stranded DNA binding

PMID:8995247

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

PMID:8995247

IDA: Inferred from Direct Assay

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:0006950

response to stress

PMID:3553157

IEP: Inferred from Expression Pattern

P

Seeded from EcoCyc (v14.0)

complete

GO:0060567

negative regulation of transcription termination

PMID:10884409

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0006950

response to stress

PMID:3553157

IEP: Inferred from Expression Pattern

P

CspA level increases after temperature downshift from 37 to 10°C.

complete

GO:0003677

DNA binding

PMID:7748932

IDA: Inferred from Direct Assay

F

complete

GO:0003727

single-stranded RNA binding

PMID:8995247

IDA: Inferred from Direct Assay

F

Figure 2

complete

GO:0003723

RNA binding

PMID:8995247

IDA: Inferred from Direct Assay

F

Fig. 1-3

complete

GO:0003697

single-stranded DNA binding

PMID:8995247

IDA: Inferred from Direct Assay

F

Fig. 5

complete

GO:0060567

negative regulation of transcription termination

PMID:10884409

IDA: Inferred from Direct Assay

P

Fig. 1C,D

complete

GO:0001072

RNA binding transcription antitermination factor activity

PMID:10884409

IDA: Inferred from Direct Assay

F

replaces obsolete GO:0030401

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

rpoC

PMID:16606699

Experiment(s):EBI-1146120

Protein

rpsI

PMID:16606699

Experiment(s):EBI-1146120

Protein

nfnB

PMID:16606699

Experiment(s):EBI-1146120

Protein

rplC

PMID:16606699

Experiment(s):EBI-1146120

Protein

rpsD

PMID:16606699

Experiment(s):EBI-1146120

Protein

rplA

PMID:16606699

Experiment(s):EBI-1146120

Protein

rpsC

PMID:16606699

Experiment(s):EBI-1146120

Protein

rpoB

PMID:16606699

Experiment(s):EBI-1146120

Protein

phoB

PMID:16606699

Experiment(s):EBI-1146120

Protein

rplQ

PMID:16606699

Experiment(s):EBI-1146120

Protein

rpsG

PMID:16606699

Experiment(s):EBI-1146120

Protein

rplO

PMID:16606699

Experiment(s):EBI-1146120

Protein

rplB

PMID:16606699

Experiment(s):EBI-1146120

Protein

accA

PMID:15690043

Experiment(s):EBI-879694

Protein

cca

PMID:15690043

Experiment(s):EBI-879694

Protein

deaD

PMID:15690043

Experiment(s):EBI-879694

Protein

ybhF

PMID:15690043

Experiment(s):EBI-879694

Protein

ycbY

PMID:15690043

Experiment(s):EBI-879694

Protein

rluC

PMID:15690043

Experiment(s):EBI-879694

Protein

rluB

PMID:15690043

Experiment(s):EBI-879694

Protein

dnaN

PMID:15690043

Experiment(s):EBI-879694

Protein

dsbG

PMID:15690043

Experiment(s):EBI-879694

Protein

rplA

PMID:15690043

Experiment(s):EBI-879694

Protein

rplD

PMID:15690043

Experiment(s):EBI-879694

Protein

rpsD

PMID:15690043

Experiment(s):EBI-879694

Protein

rplC

PMID:15690043

Experiment(s):EBI-879694, EBI-884189

Protein

atpG

PMID:15690043

Experiment(s):EBI-884189

Protein

cspG

PMID:15690043

Experiment(s):EBI-884189

Protein

hfq

PMID:15690043

Experiment(s):EBI-884189

Protein

hupA

PMID:15690043

Experiment(s):EBI-884189

Protein

hupB

PMID:15690043

Experiment(s):EBI-884189

Protein

rplL

PMID:15690043

Experiment(s):EBI-884189

Protein

rplR

PMID:15690043

Experiment(s):EBI-884189

Protein

rplS

PMID:15690043

Experiment(s):EBI-884189

Protein

rpoA

PMID:15690043

Experiment(s):EBI-884189

Protein

rpsC

PMID:15690043

Experiment(s):EBI-884189

Protein

rpsE

PMID:15690043

Experiment(s):EBI-884189

Protein

rpsG

PMID:15690043

Experiment(s):EBI-884189

Protein

rpsJ

PMID:15690043

Experiment(s):EBI-884189

Protein

rpsN

PMID:15690043

Experiment(s):EBI-884189

Protein

ydaY

PMID:15690043

Experiment(s):EBI-884189

Protein

ygcG

PMID:15690043

Experiment(s):EBI-884189

Protein

atpG

PMID:19402753

LCMS(ID Probability):99.0

Protein

rplR

PMID:19402753

LCMS(ID Probability):99.6

Protein

rlmL

PMID:19402753

MALDI(Z-score):25.000790

Protein

rplS

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):5.581639

Protein

rpsJ

PMID:19402753

LCMS(ID Probability):99.6

Protein

hupB

PMID:19402753

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753

LCMS(ID Probability):99.6

Protein

cspG

PMID:19402753

LCMS(ID Probability):99.6

Protein

hfq

PMID:19402753

LCMS(ID Probability):99.0

Protein

rluB

PMID:19402753

MALDI(Z-score):36.206042

Protein

ygcG

PMID:19402753

LCMS(ID Probability):99.0

Protein

rplL

PMID:19402753

LCMS(ID Probability):99.6

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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

cytoplasm


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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 

MSGKMTGIVK WFNADKGFGF ITPDDGSKDV FVHFSAIQND GYKSLDEGQK VSFTIESGAK
GPAAGNVTSL
Length

70

Mol. Wt

7.402 kDa

pI

5.9 (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

Initiator Methionine

1

Removed

UniProt:P0A9X9

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=cspA 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:16131427

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948070

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011616

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A9X9

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10166

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10166

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948070

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000162

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0164

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

8.19E+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

714.6+/-6.652

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.14126+/-0.01854

Molecules/cell

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

by FISH

PMID:20671182

mRNA

Ecoli K-12

0.391509434

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

43957

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

2012

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

31869

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)

cspA

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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_000913:3718052..3718092 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:b3556 (EcoliWiki Page)

NCBI GEO profiles for cspA

microarray

GenExpDB:b3556 (EcoliWiki Page)

Summary of data for cspA 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 (3717306..3717715) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ11; Well:A6[7]

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Notes

Accessions Related to cspA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10166

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0164

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3556

EcoGene

EcoGene:EG10166

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000162

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011616

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

CSPA

From SHIGELLACYC

E. coli O157

CSPA

From ECOO157CYC

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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:EG10166

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10166

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000162

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0164

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011616

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. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 2.12 2.13 2.14 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

Categories

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