copA: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

copA

Gene Synonym(s)

ECK0478, b0484, JW0473, ybaR[1], ybaR

Product Desc.

YbaR[2]; Cu+-exporting ATPase[3]

Copper-, silver-translocating P-type ATPase efflux pump; involved in copper resistance; copper- and silver-inducible; regulated by copper-responsive CueR activator[4]

Product Synonyms(s)

copper transporter[1], B0484[2][1], YbaR[2][1], CopA[2][1] , ECK0478, JW0473, ybaR, b0484

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): copA[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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Upregulated by GSNO in defined medium (anaerobic). HAD superfamily. CopA contains a putative phosphatase HAD domain: residues 516-740.[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

copA

Mnemonic

Copper

Synonyms

ECK0478, b0484, JW0473, ybaR[1], ybaR

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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

10.95 minutes 

MG1655: 510603..508099
<gbrowseImage> name=NC_000913:508099..510603 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 483547..481043
<gbrowseImage> name=NC_012967:481043..483547 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 410858..413362
<gbrowseImage> name=NC_012759:410858..413362 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 510603..508099
<gbrowseImage> name=NC_007779:508099..510603 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 449934..447430
<gbrowseImage> name=NC_010473:447430..449934 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

508102

Edman degradation

PMID:9868784


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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

copAC113A

C113A

No effect

seeded from UniProt:Q59385

copAC479A

C479A

Loss of copper resistance, transport and phosphoenzyme formation

seeded from UniProt:Q59385

copAC481A,H

C481A,H

Loss of copper resistance, transport and phosphoenzyme formation

seeded from UniProt:Q59385

copAC110A

C110A

No effect

seeded from UniProt:Q59385

copA

Deletion

copAC14A

C14A

No effect

seeded from UniProt:Q59385

copAC17A

C17A

No effect

seeded from UniProt:Q59385

ΔcopA (Keio:JW0473)

deletion

deletion

PMID:16738554

Shigen
CGSC8625[5]

ΔcopA1::kan

CGSC:77264

ΔcopA767::kan

PMID:16738554

CGSC:100374

copA(del)

Sensitivity to

Sensitivity to antimicrobial agent Copper Ion.

PMID:10639134

Experimental Strain: LMG194

See growth curve in figure 2.

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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

JW0473

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:gccTCACAAACTATCGACCTGACCCTGGAC

Primer 2:ccTTCCTTCGGTTTAAACCGCAGCAACCGG

4B10

Kohara Phage

Genobase

PMID:3038334

7C12

Kohara Phage

Genobase

PMID:3038334

gsk-3055::Tn10

Linked marker

CAG12154 = CGSC7341[5]

est. P1 cotransduction: 79% [6]
Synonyms:zbb-30-55::TnlO, zba-3055::Tn10

purK79::Tn10

Linked marker

CAG12171 = CGSC7342[5]

est. P1 cotransduction: 15% [6]
Synonyms:purE79::Tn10

copA::kan

Strain

CN2328

PMID: 11167016

pCN2345

Plasmid Clone

copA with own promoter cloned into pBR322

PMID: 11167016

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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:G6260

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13246

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002868

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946106

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3035

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001681

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

CopA

Synonyms

copper transporter[1], B0484[2][1], YbaR[2][1], CopA[2][1] , ECK0478, JW0473, ybaR, b0484

Product description

YbaR[2]; Cu+-exporting ATPase[3]

Copper-, silver-translocating P-type ATPase efflux pump; involved in copper resistance; copper- and silver-inducible; regulated by copper-responsive CueR activator[4]

EC number (for enzymes)

3.6.3.4[1]

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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:0031224

intrinsic to membrane

PMID:12351646

IDA: Inferred from Direct Assay

C

Seeded from Riley et al 2006 [1].

CopA was purified from everted membrane vesicles (Fig. 6).

complete

GO:0015662

ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism

PMID:11167016

IDA: Inferred from Direct Assay

F

Figure 2

complete

GO:0015662

ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism

PMID:12351646

IDA: Inferred from Direct Assay

F

complete

GO:0006825

copper ion transport

PMID:10639134

IMP: Inferred from Mutant Phenotype

P

Everted membrane vesicles prepared from a ΔcopA strain that expressed copA from a plasmid accumulated 64Cu. Accumulation required ATP.

complete

GO:0043682

copper-transporting ATPase activity

F

Missing: evidence, reference

GO:0016021

integral to membrane

PMID:11152613

ISM: Inferred from Sequence Model

C

Predicted transmembrane domains shown below in the table of Domains/Motifs/Modification sites.

Missing: with/from

GO:0010273

detoxification of copper ion

PMID:10639134

IMP: Inferred from Mutant Phenotype

P

copA mutants are sensitive to copper ions.

complete

GO:0016887

ATPase activity

PMID:12351646

IDA: Inferred from Direct Assay

F

Fig. 6 shows ATPase activity of CopA purified from membrane vesicles.

complete

GO:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0000287

magnesium ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0460

F

Seeded from EcoCyc (v14.0)

complete

GO:0004008

copper-exporting ATPase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006403

F

Seeded from EcoCyc (v14.0)

complete

GO:0005507

copper ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0186

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000695

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001757

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006403

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008250

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018303

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0067

F

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006754

ATP biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000695

P

Seeded from EcoCyc (v14.0)

complete

GO:0006754

ATP biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001757

P

Seeded from EcoCyc (v14.0)

complete

GO:0006754

ATP biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006403

P

Seeded from EcoCyc (v14.0)

complete

GO:0006754

ATP biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006416

P

Seeded from EcoCyc (v14.0)

complete

GO:0006754

ATP biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008250

P

Seeded from EcoCyc (v14.0)

complete

GO:0006754

ATP biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018303

P

Seeded from EcoCyc (v14.0)

complete

GO:0006825

copper ion transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0187

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000150

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005834

P

Seeded from EcoCyc (v14.0)

complete

GO:0015662

ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000695

F

Seeded from EcoCyc (v14.0)

complete

GO:0015662

ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001757

F

Seeded from EcoCyc (v14.0)

complete

GO:0015662

ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006416

F

Seeded from EcoCyc (v14.0)

complete

GO:0015662

ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018303

F

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006416

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9909

C

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006121

F

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017969

F

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc (v14.0)

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

sdhA

PMID:16606699

Experiment(s):EBI-1136866

Protein

glpD

PMID:16606699

Experiment(s):EBI-1136866

Protein

ydcD

PMID:16606699

Experiment(s):EBI-1136866

Protein

dnaK

PMID:16606699

Experiment(s):EBI-1136866

Protein

groL

PMID:16606699

Experiment(s):EBI-1136866

Protein

hflB

PMID:16606699

Experiment(s):EBI-1136866
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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

plasma membrane

C-terminus localized in the cytoplasm with 8 predicted transmembrane domains

Daley et al. (2005) [7]

Inner Membrane

PMID:10639134

EchoLocation:copA


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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 

MSQTIDLTLD GLSCGHCVKR VKESLEQRPD VEQADVSITE AHVTGTASAE QLIETIKQAG
YDASVSHPKA KPLAESSIPS EALTAVSEAL PAATADDDDS QQLLLSGMSC ASCVTRVQNA
LQSVPGVTQA RVNLAERTAL VMGSASPQDL VQAVEKAGYG AEAIEDDAKR RERQQETAVA
TMKRFRWQAI VALAVGIPVM VWGMIGDNMM VTADNRSLWL VIGLITLAVM VFAGGHFYRS
AWKSLLNGAA TMDTLVALGT GVAWLYSMSV NLWPQWFPME ARHLYYEASA MIIGLINLGH
MLEARARQRS SKALEKLLDL TPPTARLVTD EGEKSVPLAE VQPGMLLRLT TGDRVPVDGE
ITQGEAWLDE AMLTGEPIPQ QKGEGDSVHA GTVVQDGSVL FRASAVGSHT TLSRIIRMVR
QAQSSKPEIG QLADKISAVF VPVVVVIALV SAAIWYFFGP APQIVYTLVI ATTVLIIACP
CALGLATPMS IISGVGRAAE FGVLVRDADA LQRASTLDTV VFDKTGTLTE GKPQVVAVKT
FADVDEAQAL RLAAALEQGS SHPLARAILD KAGDMQLPQV NGFRTLRGLG VSGEAEGHAL
LLGNQALLNE QQVGTKAIEA EITAQASQGA TPVLLAVDGK AVALLAVRDP LRSDSVAALQ
RLHKAGYRLV MLTGDNPTTA NAIAKEAGID EVIAGVLPDG KAEAIKHLQS EGRQVAMVGD
GINDAPALAQ ADVGIAMGGG SDVAIETAAI TLMRHSLMGV ADALAISRAT LHNMKQNLLG
AFIYNSIGIP VAAGILWPFT GTLLNPVVAG AAMALSSITV VSNANRLLRF KPKE
Length

834

Mol. Wt

87.872 kDa

pI

5.4 (calculated)

Extinction coefficient

69,900 - 70,650 (calc based on 10 Y, 10 W, and 6 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:Q59385

Domain

6..62

PF00403 Heavy-metal-associated domain

PMID:19920124

Domain

102..160

PF00403 Heavy-metal-associated domain

PMID:19920124

Domain

517..732

PF00702 haloacid dehalogenase-like hydrolase

PMID:19920124

Domain

291..513

PF00122 E1-E2 ATPase

PMID:19920124

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<motif_map/>

tmhmm.php?gene=copA&show=pic&.jpg
Click the image to view raw output from TMHMM.

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

Structures

<beststructure> gene=copA 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

Purification protocol

PMID: 12351646


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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:16128468

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946106

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001681

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:Q59385

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6260

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13246

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946106

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002868

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3035

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 MG1655

117

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

922

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

164

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)

copA

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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_000913:510583..510623 source=MG1655 flip=1 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:b0484 (EcoliWiki Page)

NCBI GEO profiles for copA

microarray

GenExpDB:b0484 (EcoliWiki Page)

Summary of data for copA 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

copA-lacZ

reporter

PMID: 11167016


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Notes

Accessions Related to copA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G6260

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3035

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0484

EcoGene

EcoGene:EG13246

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002868

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001681

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

  • ENSANGP00000008866 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000021869 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT5G44790 (score: 1.000; bootstrap: 91%)
  • AT1G63440 (score: 0.281)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000013674 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000013214 (score: 0.212)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00040040 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00000834 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000006351 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000025432 (score: 0.433)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000014894 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0218568 (score: 1.000; bootstrap: 100%)
  • DDB0168129 (score: 0.144)
  • DDB0217251 (score: 0.144)
  • DDB0190385 (score: 0.079)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0030343 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000027449 (score: 1.000; bootstrap: 100%)
  • ENSGALP00000012813 (score: 0.450)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000242839 (score: 1.000; bootstrap: 100%)
  • ENSP00000345728 (score: 0.452)
  • ENSP00000355352 (score: 0.314)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000016907 (score: 1.000; bootstrap: 100%)
  • ENSMMUP00000021711 (score: 0.364)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000004937 (score: 1.000; bootstrap: 100%)
  • ENSMODP00000013156 (score: 0.452)

From Inparanoid:20070104

Mus musculus

  • MGI:103297 (score: 1.000; bootstrap: 100%)
  • MGI:99400 (score: 0.447)

From Inparanoid:20070104

Oryza gramene

  • Q6H7M3 (score: 1.000; bootstrap: 95%)
  • Q6JAG2 (score: 0.417)
  • Q6JAH7 (score: 0.402)
  • Q6JAG3 (score: 0.369)
  • Q6H6Z1 (score: 0.255)
  • Q7XU05 (score: 0.247)
  • Q655X4 (score: 0.186)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000018319 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000003395 (score: 0.409)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YDR270W (score: 1.000; bootstrap: 98%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC29A31 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000152440 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000148707 (score: 0.294)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00020077001 (score: 1.000; bootstrap: 100%)
  • GSTENP00017010001 (score: 0.219)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000044753 (score: 1.000; bootstrap: 71%)
  • ENSXETP00000009760 (score: 0.349)

From Inparanoid:20070104

Shigella flexneri

YBAR

From SHIGELLACYC

E. coli O157

YBAR

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)

PF00702 haloacid dehalogenase-like hydrolase

Pfam (EcoliWiki Page)

PF00403 Heavy-metal-associated domain

Pfam (EcoliWiki Page)

PF00403 Heavy-metal-associated domain

Pfam (EcoliWiki Page)

PF00122 E1-E2 ATPase

Panther (EcoliWiki Page)

PTHR24093:SF35

Superfamily (EcoliWiki Page)

SUPERFAMILY:55008

Superfamily (EcoliWiki Page)

SUPERFAMILY:55008

Superfamily (EcoliWiki Page)

SUPERFAMILY:56784

Superfamily (EcoliWiki Page)

SUPERFAMILY:81653

Superfamily (EcoliWiki Page)

SUPERFAMILY:81665

EcoCyc

EcoCyc:G6260

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13246

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002868

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3035

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001681

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 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 2.7 2.8 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. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed

Categories

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