copA:Gene Product(s): Difference between revisions

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|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Gene Product Resources|Resources]]
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{|{{Prettytable}}
{| {{Prettytable}} id="R46aa32c577309"  class=" tableEdit Product_nomenclature_table" 
 
|-
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!{{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
|
||
CopA product
CopA  
|-
|-
!{{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
|
||
copper transporter product<ref name='LIB:Riley_2006'/>, B0484 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YbaR product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, CopA product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''copper transporter<ref name='LIB:Riley_2006'/>, B0484<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YbaR<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, CopA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK0478, JW0473, ybaR, b0484''
|-
|-
!{{table heading style}} |Product description
!align=left {{table heading style}} |Product description
|
||
YbaR<ref name='LIB:EcoCyc10.6'/>; Cu<sup>+</sup>-exporting ATPase<ref name='LIB:EcoCyc11.1'/>
YbaR<ref name='LIB:EcoCyc10.6'/>; Cu<sup>+</sup>-exporting ATPase<ref name='LIB:EcoCyc11.1'/>


Copper-, silver-translocating P-type ATPase efflux pump; involved in copper resistance; copper- and silver-inducible; regulated by copper-responsive CueR activator<ref name='LIB:EcoGene'/>
|-
|-
!{{table heading style}} |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
|
||
*[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.4 3.6.3.4]<ref name='LIB:Riley_2006'/>
[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.4 3.6.3.4]<ref name='LIB:Riley_2006'/>
|-
 
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<protect><!--Nomenclature_notes--></protect>
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===Notes===
===Notes===
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<protect>
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<big>'''Gene Ontology'''</big>
<big>'''Gene Ontology'''</big><br /><!--box uid=421aa90e079fa326b6494f812ad13e79.20639.G46aa32c670c12-->
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="G46aa32c670c12"  class=" tableEdit GO_table_product dataTable" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!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:0016021
GO:0031224
|
|
integral to membrane
intrinsic to membrane
|
|
[[PMID:11167016]]<ref name=PMID:11167016/>
PMID:12351646
|
|
ISS: Inferred from Sequence or Structural Similarity
IDA: Inferred from Direct Assay
|
|
 
|
|
C
C
|
|
Seeded from Riley et  al 2006 <ref name='LIB:Riley_2006'/>.  
Seeded from Riley et  al 2006 <ref name='LIB:Riley_2006'/>.  
CopA was purified from everted membrane vesicles (Fig. 6).
|
|
complete  
complete  
|-
|-  
|
|
 
|
|
GO:0015662  
GO:0015662  
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ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism
ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism
|
|
[[PMID:11167016]]<ref name=PMID:11167016/>
PMID:11167016
|
|
IDA: Inferred from Direct Assay
IDA: Inferred from Direct Assay
|
|
 
|
|
F
F
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|
|
complete  
complete  
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|
 
|
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 Δ''copA'' strain that expressed ''copA'' from a plasmid accumulated <sup>64</sup>Cu.  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<br />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<br />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<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR006403
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005507
|
copper ion binding
|
GOA:spkw<br />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<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000695
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005524
|
ATP binding
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001757
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005524
|
ATP binding
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR006403
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005524
|
ATP binding
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR008250
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005524
|
ATP binding
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR018303
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005524
|
ATP binding
|
GOA:spkw<br />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<br />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<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000695
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006754
|
ATP biosynthetic process
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001757
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006754
|
ATP biosynthetic process
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR006403
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006754
|
ATP biosynthetic process
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR006416
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006754
|
ATP biosynthetic process
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR008250
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006754
|
ATP biosynthetic process
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR018303
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006825
|
copper ion transport
|
GOA:spkw<br />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<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000150
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0008152
|
metabolic process
|
GOA:interpro<br />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<br />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<br />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<br />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<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR018303
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0016021
|
integral to membrane
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR006416
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0016021
|
integral to membrane
|
GOA:spkw<br />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<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR006121
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0046872
|
metal ion binding
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR017969
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0046872
|
metal ion binding
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0479
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
 
|- class="tableEdit_footer"
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<span id="Interactions"></span><big>'''Interactions'''</big>
<span id="Interactions"></span><big>'''Interactions'''</big>
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!Partner Type!!Partner!!Notes
!|Partner Type!!Partner!!Notes!!References!!Evidence
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|
Protein
|
sdhA<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1136866<br />
|-
|
Protein
|
glpD<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1136866<br />
|-
|
Protein
|
ydcD<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1136866<br />
|-
|
Protein
|
dnaK<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1136866<br />
|-
|
Protein
|
groL<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1136866<br />
|-
|
Protein
|
hflB<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1136866<br />
 
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<!--Function_notes--></protect>
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===Notes===
===Notes===
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|- {{table heading style}}
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!Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
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|
plasma membrane
|
C-terminus localized in the cytoplasm with 8 predicted transmembrane domains
|
Daley et al. (2005) <ref name=PMID:15919996/>
|
 
|
|-
|
Inner Membrane
|
 
|
PMID:10639134
|
[http://www.york.ac.uk/res/thomas/Echolocation.cfm?EB_SubLocID=EB3035 EchoLocation:copA]
|
 
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{|{{Prettytable}}
{|   id="X46aa32cea7bff"  class=" tableEdit Product_phys_prop_table" 
 
|-
!align=left {{table heading style}} |Name
||
 
|-
|-
!{{table heading style}} |Sequence
!align=left {{table heading style}} |Sequence
|
||
[http://biocyc.org/ECOLI/sequence-aa?object=G6260-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=G6260-MONOMER at EcoCyc]  
<pre>MSQTIDLTLD GLSCGHCVKR VKESLEQRPD VEQADVSITE AHVTGTASAE QLIETIKQAG
<pre>MSQTIDLTLD GLSCGHCVKR VKESLEQRPD VEQADVSITE AHVTGTASAE QLIETIKQAG
Line 191: Line 975:
AFIYNSIGIP VAAGILWPFT GTLLNPVVAG AAMALSSITV VSNANRLLRF KPKE</pre>  
AFIYNSIGIP VAAGILWPFT GTLLNPVVAG AAMALSSITV VSNANRLLRF KPKE</pre>  
|-
|-
!{{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Length
|
||
87.87 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
834
|-
|-
!{{table heading style}} |pI
!align=left {{table heading style}} |Mol. Wt
|
||
87.872 kDa
|-
|-
!{{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |pI
|
||
69900 - 70650 (calc based on 10 Y, 10 W, and 6 C residues)  
5.4 (calculated)
|-
|-
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!align=left {{table heading style}} |Extinction coefficient
||
69,900 - 70,650 (calc based on 10 Y, 10 W, and 6 C residues)
 
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<big>'''Domains/Motifs/Modification Sites'''</big>
 
<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
<table>
<tr align="left" valign="top">
<td>
 
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|- {{table heading style}}
|- {{table heading style}}
!Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-class='sortbottom'
|-
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|
Initiator Methionine
|
1
|
Removed
|
[http://www.uniprot.org/uniprot/Q59385#section_features UniProt:Q59385]
|
|-
|
Domain
|
6..62
|
[http://pfam.janelia.org/family/PF00403 PF00403  Heavy-metal-associated domain]
|
 
|
PMID:19920124
|-
|
Domain
|
102..160
|
[http://pfam.janelia.org/family/PF00403 PF00403  Heavy-metal-associated domain]
|
 
|
PMID:19920124
|-
|
Domain
|
517..732
|
[http://pfam.janelia.org/family/PF00702 PF00702  haloacid dehalogenase-like hydrolase]
|
 
|
PMID:19920124
|-
|
Domain
|
291..513
|
[http://pfam.janelia.org/family/PF00122 PF00122  E1-E2 ATPase]
|
 
|
PMID:19920124
 
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<span id="Structure"></span><big>'''Structure'''</big>
</td>
<td>
<!-- motifs column 2-->
<motif_map/>
{{TMHMM Picture|copA}}
</td>
</tr>
</table>
 
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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{|class = 'sortable' {{Prettytable}} id='104076'
{|   id="X46a7c440c27bf"  class=" tableEdit Product_structure_table" 
|- {{table heading style}}
 
!Structure Type!!Organism!!Accession!!Residues covered!!Notes
|-
|-class='sortbottom'
!align=left {{table heading style}} |Structures
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20639.X46a7c440c27bf&page=20639&pagename={{FULLPAGENAMEE}} edit table] || || || ||
||
<beststructure>
gene=copA
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://www.proteinmodelportal.org/query/uniprot/Q59385 Protein Model Portal]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=Q59385 PSI-PRED (Q59385)]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=Q59385 Genomes TO Protein (Q59385)] (GTOP)
 
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<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


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|
Purification protocol
|
PMID: 12351646
|
 
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===Notes===
===Notes===
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|- {{table_heading_style}}
|- {{table_heading_style}}
!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/16128468 GI:16128468]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/NP_415017.1 GeneID:946106]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0001681
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G6260-MONOMER EcoCyc:G6260-MONOMER]
[http://www.uniprot.org/uniprot/Q59385 UniProtKB/Swiss-Prot:Q59385]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|-  
|
|
[http://swissmodel.expasy.org/repository/ SwissModel] ([[SwissModel|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://swissmodel.expasy.org/repository/smr.php?job=2&sptr_ac=Q59385 SwissModel:Q59385] 
EcoCyc:G6260
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://www.expasy.ch/cgi-bin/sprot-search-ac?Q59385 UniProt:Q59385] 
EcoGene:EG13246
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
|
|
[http://pfam.sanger.ac.uk/family?acc=PF00403 PFAM:PF00403]
[http://www.ncbi.nlm.nih.gov/gene?term=946106 GeneID:946106]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|-  
|
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_415017 RefSeq:NP_415017] 
RegulonDB:ECK120002868
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://salilab.org/modbase/searchbyid?databaseID=Q59385 ModBase:Q59385] 
EchoBASE:EB3035
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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===Notes===
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{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0016021_!_integral to membrane]][[Category:GO:0015662_!_ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism]]
[[Category:RefGenome_Annotated_Gene]]
[[Category:RefGenome_Annotated_Gene]]

Latest revision as of 20:26, 17 February 2015

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

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]

edit table


Notes

Function

[back to top]


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[5]

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[6]

IDA: Inferred from Direct Assay

F

Figure 2

complete

GO:0015662

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

PMID:12351646[5]

IDA: Inferred from Direct Assay

F

complete

GO:0006825

copper ion transport

PMID:10639134[7]

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[8]

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[7]

IMP: Inferred from Mutant Phenotype

P

copA mutants are sensitive to copper ions.

complete

GO:0016887

ATPase activity

PMID:12351646[5]

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[9]

Experiment(s):EBI-1136866

Protein

glpD

PMID:16606699[9]

Experiment(s):EBI-1136866

Protein

ydcD

PMID:16606699[9]

Experiment(s):EBI-1136866

Protein

dnaK

PMID:16606699[9]

Experiment(s):EBI-1136866

Protein

groL

PMID:16606699[9]

Experiment(s):EBI-1136866

Protein

hflB

PMID:16606699[9]

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) [10]

Inner Membrane

PMID:10639134[7]

EchoLocation:copA


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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 

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[11]

Domain

102..160

PF00403 Heavy-metal-associated domain

PMID:19920124[11]

Domain

517..732

PF00702 haloacid dehalogenase-like hydrolase

PMID:19920124[11]

Domain

291..513

PF00122 E1-E2 ATPase

PMID:19920124[11]

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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

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[5]


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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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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 1.5 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 5.3 Fan, B & Rosen, BP (2002) Biochemical characterization of CopA, the Escherichia coli Cu(I)-translocating P-type ATPase. J. Biol. Chem. 277 46987-92 PubMed
  6. ↑ Petersen, C & Møller, LB (2000) Control of copper homeostasis in Escherichia coli by a P-type ATPase, CopA, and a MerR-like transcriptional activator, CopR. Gene 261 289-98 PubMed
  7. ↑ 7.0 7.1 7.2 Rensing, C et al. (2000) CopA: An Escherichia coli Cu(I)-translocating P-type ATPase. Proc. Natl. Acad. Sci. U.S.A. 97 652-6 PubMed
  8. ↑ Krogh, A et al. (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305 567-80 PubMed
  9. ↑ 9.0 9.1 9.2 9.3 9.4 9.5 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  10. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
  11. ↑ 11.0 11.1 11.2 11.3 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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