clcA:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
chloride channel, voltage-gated<ref name='LIB:Riley_2006'/>, B0155<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, EriC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, ClcA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YadQ<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''chloride channel, voltage-gated<ref name='LIB:Riley_2006'/>, B0155<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, EriC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, ClcA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YadQ<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK0154, eriC, JW5012, yadQ, b0155''
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="K46aa1fb5bbbd7"  class=" tableEdit GO_table_product dataTable"   
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!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
!|Qualifier!!GO ID!!GO term name!!Reference!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|
 
|
GO:0031404
|
chloride ion binding
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0868
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0016021
|
integral to membrane
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0812
|
C
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0016020
|
membrane
|
GO_REF:0000002<br />GO_REF:0000004<br />GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001807<br />SP_KW:KW-0397<br />SP_KW:KW-0472
|
C
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|
 
|
GO:0015297
|
antiporter activity
|
GO_REF:0000004<br />GO_REF:0000020
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0050<br />HAMAP:MF_01128
|
F
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|
 
|
GO:0006950
|
response to stress
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0346
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0006821
|
chloride transport
|
GO_REF:0000002<br />GO_REF:0000020
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001807<br />HAMAP:MF_01128
|
P
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|
 
|
GO:0006811
|
ion transport
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0406
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0006810
|
transport
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0813
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0005247
|
voltage-gated chloride channel activity
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001807
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0005216
|
ion channel activity
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR014743
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0005886
|
plasma membrane
|
GO_REF:0000020<br />GO_REF:0000004<br />GO_REF:0000004<br />GO_REF:0000023
|
IEA: Inferred from Electronic Annotation
|
HAMAP:MF_01128<br />SP_KW:KW-0997<br />SP_KW:KW-1003<br />SP_SL:SL-0037
|
C
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0005216
|
ion channel activity
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR014743
|
F
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0005247
|
voltage-gated chloride channel activity
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001807
|
F
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0005886
|
plasma membrane
|
GO_REF:0000020<br />GO_REF:0000004<br />GO_REF:0000004<br />GO_REF:0000023
|
IEA: Inferred from Electronic Annotation
|
HAMAP:MF_01128<br />SP_KW:KW-0997<br />SP_KW:KW-1003<br />SP_SL:SL-0037
|
C
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0006810
|
transport
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0813
|
P
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0006811
|
ion transport
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0406
|
P
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0006821
|
chloride transport
|
GO_REF:0000020<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
HAMAP:MF_01128<br />InterPro:IPR001807
|
P
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0006950
|
response to stress
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0346
|
P
|
Seeded from EcoCyc
|
complete


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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence


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!|Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
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Daley et al. (2005) <ref name=PMID:15919996/>
Daley et al. (2005) <ref name=PMID:15919996/>
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From EcoCyc<ref name='LIB:EcoCyc11.1'/>   
From EcoCyc<ref name='LIB:EcoCyc11.1'/>  
|
   


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!align=left {{table heading style}} |Name
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!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
50.35 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
50.351 kDa
|-
|-
!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
9.8 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
46410 - 46785 (calc based on 9 Y, 6 W, and 3 C residues)  
46,410 - 46,785 (calc based on 9 Y, 6 W, and 3 C residues)


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!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-  
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Domain
Domain
|
|
210 - 232
88..438
|
|
Predicted membrane-spanning helix.
[http://pfam.janelia.org/family/PF00654 PF00654  Voltage gated chloride channel]
|
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
 
|-
|
|
Domain
PMID:19920124
|
252 - 274
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
287 - 309
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
319 - 341
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
354 - 376
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
391 - 413
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
418 - 440
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
31 - 53
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
75 - 97
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
124 - 146
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
179 - 201
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />


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</table>
</table>


<span id="Structure"></span><big>'''Structure'''</big>
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>clcA
<beststructure>
562</beststructure>
gene=clcA
 
taxon=562,83333
</beststructure>
|-
|-
!align=left {{table heading style}} |Models
!align=left {{table heading style}} |Models
||
||
View models at:
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=clcA&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P37019 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=clcA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P37019 PSI-PRED (P37019)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P37019 Genomes TO Protein (P37019)] (GTOP)
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)


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<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


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!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference


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!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
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[http://www.ncbi.nlm.nih.gov/protein/16128148 GI:16128148]
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Escherichia coli str. K-12 substr. MG1655
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[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
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[http://www.ncbi.nlm.nih.gov/protein/NP_414697.1 GeneID:946715]
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Escherichia coli str. K-12 substr. MG1655
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[[ASAP]]
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ASAP:ABE-0000533
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=YADQ-MONOMER EcoCyc:YADQ-MONOMER]
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
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[http://www.uniprot.org/uniprot/P37019 UniProtKB/Swiss-Prot:P37019]
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Escherichia coli str. K-12 substr. MG1655
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[[EcoCyc]]
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EcoCyc:EG12331
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[EcoGene]]
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[[uniprot:P37019|UniProt:P37019]]
EcoGene:EG12331
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
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[http://pfam.sanger.ac.uk/family?acc=PF00654 PFAM:PF00654]
[http://www.ncbi.nlm.nih.gov/gene?term=946715 GeneID:946715]
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Escherichia coli str. K-12 substr. MG1655
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[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[RegulonDB]]
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[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_414697 RefSeq:NP_414697]
RegulonDB:ECK120002206
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
[[EchoBASE]]
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[http://salilab.org/modbase/searchbyid?databaseID=P37019 ModBase:P37019]
EchoBASE:EB2235
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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==References==
==References==
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{{BacktoTop}}
 
{{RefHelp}}
<references/>
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__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:Location:plasma membrane]]
[[Category:Location:plasma membrane]]
[[Category:Pfam:PF00654_!_Voltage gated chloride channel]]

Latest revision as of 20:21, 17 February 2015

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

ClcA

Synonyms

chloride channel, voltage-gated[1], B0155[2][1], EriC[2][1], ClcA[2][1], YadQ[2][1] , ECK0154, eriC, JW5012, yadQ, b0155

Product description

EriC chloride ion ClC channel[2][3]

Voltage-gated ClC-type chloride channel; involved in the extreme acid response[4]

EC number (for enzymes)


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Notes

Function

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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
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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
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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 10 predicted transmembrane domains

Daley et al. (2005) [5]

plasma membrane

From EcoCyc[3]


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Notes

Structure and Physical Properties

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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 

MKTDTPSLET PQAARLRRRQ LIRQLLERDK TPLAILFMAA VVGTLVGLAA VAFDKGVAWL
QNQRMGALVH TADNYPLLLT VAFLCSAVLA MFGYFLVRKY APEAGGSGIP EIEGALEDQR
PVRWWRVLPV KFFGGLGTLG GGMVLGREGP TVQIGGNIGR MVLDIFRLKG DEARHTLLAT
GAAAGLAAAF NAPLAGILFI IEEMRPQFRY TLISIKAVFI GVIMSTIMYR IFNHEVALID
VGKLSDAPLN TLWLYLILGI IFGIFGPIFN KWVLGMQDLL HRVHGGNITK WVLMGGAIGG
LCGLLGFVAP ATSGGGFNLI PIATAGNFSM GMLVFIFVAR VITTLLCFSS GAPGGIFAPM
LALGTVLGTA FGMVAVELFP QYHLEAGTFA IAGMGALLAA SIRAPLTGII LVLEMTDNYQ
LILPMIITGL GATLLAQFTG GKPLYSAILA RTLAKQEAEQ LARSKAASAS ENT
Length

473

Mol. Wt

50.351 kDa

pI

9.8 (calculated)

Extinction coefficient

46,410 - 46,785 (calc based on 9 Y, 6 W, and 3 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

88..438

PF00654 Voltage gated chloride channel

PMID:19920124[6]

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<motif_map/>

tmhmm.php?gene=clcA&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=clcA taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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:16128148

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946715

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000533

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P37019

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12331

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12331

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946715

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002206

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2235

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 1.3 1.4 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 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. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
  6. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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