copA:Gene Product(s): Difference between revisions

Standard name	CopA
Synonyms	copper transporter^[1], B0484^[2]^[1], YbaR^[2]^[1], CopA^[2]^[1]
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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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(s)	Evidence Code	with/from	Aspect	Notes	Status
	GO:0004008	copper-exporting ATPase activity	GO_REF:0000002 GO_REF:0000003	IEA: Inferred from Electronic Annotation	InterPro:IPR006403 EC:3.6.3.4	F	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0005375	copper ion transmembrane transporter activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0187	F	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0003824	catalytic activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005834	F	Seeded from EcoCyc ^[6]	complete
	GO:0000287	magnesium ion binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0460	F	Seeded from EcoCyc ^[6]	complete
	GO:0000166	nucleotide binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0547	F	Seeded from EcoCyc ^[6]	complete
	GO:0016020	membrane	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR000695 InterPro:IPR001757 InterPro:IPR006403 InterPro:IPR008250 SP_KW:KW-0472	C	Seeded from EcoCyc ^[6]	complete
	GO:0015992	proton transport	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000695	P	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0005507	copper ion binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0186	F	Seeded from EcoCyc ^[6]	complete
	GO:0005524	ATP binding	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR000695 InterPro:IPR001757 InterPro:IPR006403 InterPro:IPR008250 SP_KW:KW-0067	F	Seeded from EcoCyc ^[6]	complete
	GO:0006810	transport	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR001757 SP_KW:KW-0813	P	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0006811	ion transport	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0406	P	Seeded from EcoCyc ^[6]	complete
	GO:0006825	copper ion transport	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0187	P	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0008152	metabolic process	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005834	P	Seeded from EcoCyc ^[6]	complete
	GO:0015662	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000695 InterPro:IPR001757 InterPro:IPR006416	F	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0016021	integral to membrane	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR006416 SP_KW:KW-0812	C	Seeded from EcoCyc ^[6]	complete
	GO:0016787	hydrolase activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0378	F	Seeded from EcoCyc ^[6]	complete
	GO:0046873	metal ion transmembrane transporter activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006403	F	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0016820	hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR008250	F	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0030001	metal ion transport	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006121 InterPro:IPR006403 InterPro:IPR006416	P	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0046872	metal ion binding	GO_REF:0000002 GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR006121 InterPro:IPR006403 SP_KW:KW-0479	F	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0031224	intrinsic to membrane	PMID:12351646^[7]	IDA: Inferred from Direct Assay		C	Seeded from Riley et al 2006 ^[1]. CopA was purified from everted membrane vesicles (Fig. 6).	complete
	GO:0005886	plasma membrane	GO_REF:0000004 GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_KW:KW-1003 SP_SL:SL-0039	C	Seeded from EcoCyc ^[6]	complete
	GO:0006754	ATP biosynthetic process	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000695 InterPro:IPR001757 InterPro:IPR006403 InterPro:IPR006416 InterPro:IPR008250	P	Seeded from EcoCyc ^[6]	complete
	GO:0015662	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism	PMID:11167016^[8]	IDA: Inferred from Direct Assay		F	Figure 2	complete
	GO:0015662	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism	PMID:12351646^[7]	IDA: Inferred from Direct Assay		F		complete
	GO:0006825	copper ion transport	PMID:10639134^[9]	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		required field missing
	GO:0016021	integral to membrane	PMID:11152613^[10]	ISM: Inferred from Sequence Model		C	Predicted transmembrane domains shown below in the table of Domains/Motifs/Modification sites.	complete
	GO:0010273	detoxification of copper ion	PMID:10639134^[9]	IMP: Inferred from Mutant Phenotype		P	copA mutants are sensitive to copper ions.	complete
	GO:0016887	ATPase activity	PMID:12351646^[7]	IDA: Inferred from Direct Assay		F	Fig. 6 shows ATPase activity of CopA purified from membrane vesicles.	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	References	Evidence
Protein	sdhA	PMID:16606699^[11]	Experiment(s):EBI-1136866
Protein	glpD	PMID:16606699^[11]	Experiment(s):EBI-1136866
Protein	ydcD	PMID:16606699^[11]	Experiment(s):EBI-1136866
Protein	dnaK	PMID:16606699^[11]	Experiment(s):EBI-1136866
Protein	groL	PMID:16606699^[11]	Experiment(s):EBI-1136866
Protein	hflB	PMID:16606699^[11]	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	Source
plasma membrane	C-terminus localized in the cytoplasm with 8 predicted transmembrane domains	Daley et al. (2005) ^[12]
Inner Membrane		PMID:10639134^[9]	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.

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
Initiator Methionine	1	Removed	UniProt:Q59385
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<motif_map/>

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^[7]
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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 (EcoliWiki Page)	EcoCyc:G6260-MONOMER
SwissModel (EcoliWiki Page)	SwissModel:Q59385
UniProt (EcoliWiki Page)	UniProt:Q59385
PFAM (EcoliWiki Page)	PFAM:PF00403
RefSeq (EcoliWiki Page)	RefSeq:NP_415017
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^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)
↑ ^2.0 ^2.1 ^2.2 ^2.3 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.00 ^5.01 ^5.02 ^5.03 ^5.04 ^5.05 ^5.06 ^5.07 ^5.08 ^5.09 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^6.00 ^6.01 ^6.02 ^6.03 ^6.04 ^6.05 ^6.06 ^6.07 ^6.08 ^6.09 ^6.10 ^6.11 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
↑ ^7.0 ^7.1 ^7.2 ^7.3 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
↑ 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
↑ ^9.0 ^9.1 ^9.2 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
↑ 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
↑ ^11.0 ^11.1 ^11.2 ^11.3 ^11.4 ^11.5 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed

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-!align=left {{table heading style}} |Standard name
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 CopA
 |-
-!align=left {{table heading style}} |Synonyms
+!align=left  |Synonyms
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 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'/>
 |-
-!align=left {{table heading style}} |Product description
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 YbaR<ref name='LIB:EcoCyc10.6'/>; Cu<sup>+</sup>-exporting ATPase<ref name='LIB:EcoCyc11.1'/>
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 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'/>
 |-
-!align=left {{table heading style}} |EC number (for enzymes)
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 ||
 [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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 Experiment(s):EBI-1136866<br />
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 PMID:10639134
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 [http://www.york.ac.uk/res/thomas/Echolocation.cfm?EB_SubLocID=EB3035 EchoLocation:copA]
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 [http://biocyc.org/ECOLI/sequence-aa?object=G6260-MONOMER at EcoCyc]
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 AFIYNSIGIP VAAGILWPFT GTLLNPVVAG AAMALSSITV VSNANRLLRF KPKE</pre>
 |-
-!align=left {{table heading style}} |Length
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 |-
-!align=left {{table heading style}} |Mol. Wt
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 .872 kDa
 |-
-!align=left {{table heading style}} |pI
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 .4 (calculated)
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 ,900 - 70,650 (calc based on 10 Y, 10 W, and 6 C residues)
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 * [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)
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+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20639.W46aa32cfa235b&page=20639&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.20639.W46aa32cfa235b-->
@@ Line 977: / Line 977: @@
 *
 ****************************************************************************************** -->{{Gene_accessions_help}}
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{|   id="J46aa32cfecb2f"  class=" tableEdit Gene_accessions_table"
-|- {{table_heading_style}}
+|-
 !|Database!!Accession!!Notes
 |-
@@ Line 1,016: / Line 1,016: @@
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20639.J46aa32cfecb2f&page=20639&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20639.J46aa32cfecb2f&page=20639&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.20639.J46aa32cfecb2f-->
@@ Line 1,034: / Line 1,034: @@
 *
 ****************************************************************************************** -->
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{|   id="S46a7c444ea657"  class=" tableEdit Links_table"
-|- {{table_heading_style}}
+|-
 !|Name!!URL!!Comments
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20639.S46a7c444ea657&page=20639&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20639.S46a7c444ea657&page=20639&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.20639.S46a7c444ea657-->

copA:Gene Product(s): Difference between revisions

Revision as of 00:24, 9 January 2010

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

Navigation menu

copA:Gene Product(s): Difference between revisions

Revision as of 00:24, 9 January 2010

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

Navigation menu

Search