parC:Gene Product(s): Difference between revisions

Standard name	ParC
Synonyms	DNA topoisomerase IV, subunit A^[1], B3019^[2]^[1], ParC^[2]^[1]
Product description	topoisomerase IV subunit A^[2]^[3]; Component of dimer of topoisomerase IV subunit A^[3]; topoisomerase IV^[3] Topoisomerase IV, subunit A, ATP-dependent, type II; chromosome decatenase; relaxes both positive and negative supercoils; DNA unknotting activity; heterotetrameric^[4]
EC number (for enzymes)	5.99.1.-^[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:0003677	DNA binding	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR002205 InterPro:IPR005742 InterPro:IPR006691 InterPro:IPR013757 InterPro:IPR013758 InterPro:IPR013760 SP_KW:KW-0238	F	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0003916	DNA topoisomerase activity	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR006691 SP_KW:KW-0799	F	Seeded from EcoCyc ^[6]	complete
	GO:0003918	DNA topoisomerase (ATP-hydrolyzing) activity	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002205 InterPro:IPR005742 InterPro:IPR013757 InterPro:IPR013758 InterPro:IPR013760	F	Seeded from EcoCyc ^[6]	complete
	GO:0005524	ATP binding	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002205 InterPro:IPR005742 InterPro:IPR006691 InterPro:IPR013757 InterPro:IPR013758 InterPro:IPR013760	F	Seeded from EcoCyc ^[6]	complete
	GO:0005694	chromosome	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002205 InterPro:IPR005742 InterPro:IPR006691 InterPro:IPR013757 InterPro:IPR013758 InterPro:IPR013760	C	Seeded from EcoCyc ^[6]	complete
	GO:0006265	DNA topological change	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002205 InterPro:IPR005742 InterPro:IPR006691 InterPro:IPR013757 InterPro:IPR013758 InterPro:IPR013760	P	Seeded from EcoCyc ^[6]	complete
	GO:0006268	DNA unwinding during replication	GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005742 InterPro:IPR006691	P	Seeded from EcoCyc 12.5 ^[5]	complete
	GO:0007059	chromosome segregation	PMID:2842295^[7]	IMP: Inferred from Mutant Phenotype		P	Seeded from EcoCyc ^[6]	complete
	GO:0016853	isomerase activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0413	F	Seeded from EcoCyc ^[6]	complete
	GO:0005737	cytoplasm	PMID:12535532^[8]	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc 11.1^[3].	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:0016020	membrane	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0472	C	Seeded from EcoCyc ^[6]	complete
	GO:0006261	DNA-dependent DNA replication	PMID:2170028^[9]	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc 11.1^[3].	complete
	GO:0003918	DNA topoisomerase (ATP-hydrolyzing) activity		IDA: Inferred from Direct Assay		F		required field missing
	GO:0007059	chromosome segregation	PMID:2842295^[7]	IMP: Inferred from Mutant Phenotype		P		complete
Contributes to	GO:0003916	DNA topoisomerase activity	PMID:1334483^[10]	IDA: Inferred from Direct Assay		F		complete
	GO:0019897	extrinsic to plasma membrane	PMID:1334483^[10]	IDA: Inferred from Direct Assay		C	in the presence of DNA	complete
	GO:0005737	cytoplasm	PMID:1334483^[10]	IDA: Inferred from Direct Assay		C	in the presence of Mg2+	complete
Contributes to	GO:0003918	DNA topoisomerase (ATP-hydrolyzing) activity	PMID:8227000^[11]	IDA: Inferred from Direct Assay		F		complete
	GO:0009330	DNA topoisomerase complex (ATP-hydrolyzing)	PMID:8227000^[11]	IDA: Inferred from Direct Assay		C		complete
	GO:0006265	DNA topological change	PMID:8227000^[11]	IDA: Inferred from Direct Assay		P		complete
	GO:0003677	DNA binding	PMID:16023670^[12]	IDA: Inferred from Direct Assay		F		complete
	GO:0030541	plasmid partitioning	PMID:8104339^[13]	IDA: Inferred from Direct Assay		P		complete
	GO:0006265	DNA topological change	PMID:16023670^[12]	IDA: Inferred from Direct Assay		P		complete
	GO:0007059	chromosome segregation	PMID:16023670^[12]	IDA: Inferred from Direct Assay		P		complete
	GO:0007062	sister chromatid cohesion	PMID:18765793^[14]	IMP: Inferred from Mutant Phenotype		P		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	Subunits of dimer of topoisomerase IV subunit A	could be indirect
Protein	yciH		PMID:16606699^[15]	Experiment(s):EBI-1144556
Protein	rplB		PMID:16606699^[15]	Experiment(s):EBI-1144556
Protein	rplA		PMID:16606699^[15]	Experiment(s):EBI-1144556
Protein	pflD		PMID:16606699^[15]	Experiment(s):EBI-1144556
Protein	aceF		PMID:15690043^[16]	Experiment(s):EBI-883350
Protein	lpdA		PMID:15690043^[16]	Experiment(s):EBI-883350
Protein	mreB		PMID:15690043^[16]	Experiment(s):EBI-883350
Protein	gyrA		PMID:15690043^[16]	Experiment(s):EBI-883350
Protein	secA		PMID:15690043^[16]	Experiment(s):EBI-883350
Protein	murF		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	rfaQ		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	rplL		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	rplM		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	rplV		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	rpmA		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	rpmG		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	rpsB		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	rpsJ		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	slyD		PMID:15690043^[16]	Experiment(s):EBI-890645
Protein	Subunits of topoisomerase IV	could be indirect
Protein	MreB		PMID:19187760^[17]
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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	Notes
cytoplasm			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.

Sequence	at EcoCyc MSDMAERLAL HEFTENAYLN YSMYVIMDRA LPFIGDGLKP VQRRIVYAMS ELGLNASAKF KKSARTVGDV LGKYHPHGDS ACYEAMVLMA QPFSYRYPLV DGQGNWGAPD DPKSFAAMRY TESRLSKYSE LLLSELGQGT ADWVPNFDGT LQEPKMLPAR LPNILLNGTT GIAVGMATDI PPHNLREVAQ AAIALIDQPK TTLDQLLDIV QGPDYPTEAE IITSRAEIRK IYENGRGSVR MRAVWKKEDG AVVISALPHQ VSGARVLEQI AAQMRNKKLP MVDDLRDESD HENPTRLVIV PRSNRVDMDQ VMNHLFATTD LEKSYRINLN MIGLDGRPAV KNLLEILSEW LVFRRDTVRR RLNYRLEKVL KRLHILEGLL VAFLNIDEVI EIIRNEDEPK PALMSRFGLT ETQAEAILEL KLRHLAKLEE MKIRGEQSEL EKERDQLQGI LASERKMNNL LKKELQADAQ AYGDDRRSPL QEREEAKAMS EHDMLPSEPV TIVLSQMGWV RSAKGHDIDA PGLNYKAGDS FKAAVKGKSN QPVVFVDSTG RSYAIDPITL PSARGQGEPL TGKLTLPPGA TVDHMLMESD DQKLLMASDA GYGFVCTFND LVARNRAGKA LITLPENAHV MPPVVIEDAS DMLLAITQAG RMLMFPVSDL PQLSKGKGNK IINIPSAEAA RGEDGLAQLY VLPPQSTLTI HVGKRKIKLR PEELQKVTGE RGRRGTLMRG LQRIDRVEID SPRRASSGDS EE
Length	752
Mol. Wt	83.833 kDa
pI	6.7 (calculated)
Extinction coefficient	55,810 - 56,060 (calc based on 19 Y, 5 W, and 2 C residues)
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<wikiPageContents>Image:1ZVU.pdb</wikiPageContents>

Domains/Motifs/Modification Sites

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

Type	Residues	Description	Notes
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<motif_map/>

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

Structures

<beststructure> gene=parC taxon=562,83333 </beststructure>

Models

View models at:

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See Help:Jmol in EcoliWiki

Text label
<jmol> <jmolApplet> <color>white</color> <uploadedFileContents >1ZVU.pdb</uploadedFileContents> <name></name> <script> wireframe off; spacefill off; trace off; rotate ON; cartoon; color chain; </script> </jmolApplet> </jmol>
<jmol> <jmolCheckbox > <scriptWhenChecked > rotate on; </scriptWhenChecked > <scriptWhenUnchecked > rotate off; </scriptWhenUnchecked > <checked>true</checked> <text>rotate</text> </jmolCheckbox > <jmolButton><script>reset; </script><text>reset</text></jmolButton> </jmol>

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
EcoCyc (EcoliWiki Page)	EcoCyc:EG10686-MONOMER
SwissModel (EcoliWiki Page)	SwissModel:P0AFI2
UniProt (EcoliWiki Page)	UniProt:P0AFI2
PFAM (EcoliWiki Page)	PFAM:PF00521
RefSeq (EcoliWiki Page)	RefSeq:NP_417491
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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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 ^3.5 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.
↑ ^5.0 ^5.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^6.0 ^6.1 ^6.2 ^6.3 ^6.4 ^6.5 ^6.6 ^6.7 ^6.8 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
↑ ^7.0 ^7.1 Kato, J et al. (1988) Gene organization in the region containing a new gene involved in chromosome partition in Escherichia coli. J. Bacteriol. 170 3967-77 PubMed
↑ Espeli, O et al. (2003) Temporal regulation of topoisomerase IV activity in E. coli. Mol. Cell 11 189-201 PubMed
↑ Kato, J et al. (1990) New topoisomerase essential for chromosome segregation in E. coli. Cell 63 393-404 PubMed
↑ ^10.0 ^10.1 ^10.2 Kato, J et al. (1992) Purification and characterization of DNA topoisomerase IV in Escherichia coli. J. Biol. Chem. 267 25676-84 PubMed
↑ ^11.0 ^11.1 ^11.2 Peng, H & Marians, KJ (1993) Escherichia coli topoisomerase IV. Purification, characterization, subunit structure, and subunit interactions. J. Biol. Chem. 268 24481-90 PubMed
↑ ^12.0 ^12.1 ^12.2 Corbett, KD et al. (2005) The structural basis for substrate specificity in DNA topoisomerase IV. J. Mol. Biol. 351 545-61 PubMed
↑ Peng, H & Marians, KJ (1993) Decatenation activity of topoisomerase IV during oriC and pBR322 DNA replication in vitro. Proc. Natl. Acad. Sci. U.S.A. 90 8571-5 PubMed
↑ Wang, X et al. (2008) Modulation of Escherichia coli sister chromosome cohesion by topoisomerase IV. Genes Dev. 22 2426-33 PubMed
↑ ^15.0 ^15.1 ^15.2 ^15.3 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
↑ ^16.00 ^16.01 ^16.02 ^16.03 ^16.04 ^16.05 ^16.06 ^16.07 ^16.08 ^16.09 ^16.10 ^16.11 ^16.12 ^16.13 ^16.14 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
↑ Madabhushi, R & Marians, KJ (2009) Actin homolog MreB affects chromosome segregation by regulating topoisomerase IV in Escherichia coli. Mol. Cell 33 171-80 PubMed

parC:Gene Product(s): Difference between revisions

Revision as of 02:34, 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

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-!align=left {{table heading style}} |Standard name
+!align=left  |Standard name
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 ParC
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-!align=left {{table heading style}} |Synonyms
+!align=left  |Synonyms
 ||
 DNA topoisomerase IV, subunit A<ref name='LIB:Riley_2006'/>, B3019<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, ParC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
 |-
-!align=left {{table heading style}} |Product description
+!align=left  |Product description
 ||
 topoisomerase IV subunit A<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;
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 Topoisomerase IV, subunit A, ATP-dependent, type II; chromosome decatenase; relaxes both positive and negative supercoils; DNA unknotting activity; heterotetrameric<ref name='LIB:EcoGene'/>
 |-
-!align=left {{table heading style}} |EC number (for enzymes)
+!align=left  |EC number (for enzymes)
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 [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.99.1.- 5.99.1.-]<ref name='LIB:Riley_2006'/>
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 !|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
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-sister chromatid cohesion
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 PMID:16023670
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-chromosome segregation
+sister chromatid cohesion
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-IDA: Inferred from Direct Assay
+IMP: Inferred from Mutant Phenotype
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 !|Partner Type!!Partner!!Notes!!References!!Evidence
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-!align=left {{table heading style}} |Sequence
+!align=left  |Sequence
 ||
 [http://biocyc.org/ECOLI/sequence-aa?object=EG10686-MONOMER at EcoCyc]
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 RGRRGTLMRG LQRIDRVEID SPRRASSGDS EE</pre>
 |-
-!align=left {{table heading style}} |Length
+!align=left  |Length
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 |-
-!align=left {{table heading style}} |Mol. Wt
+!align=left  |Mol. Wt
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 .833 kDa
 |-
-!align=left {{table heading style}} |pI
+!align=left  |pI
 ||
 .7 (calculated)
 |-
-!align=left {{table heading style}} |Extinction coefficient
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 ||
 ,810 - 56,060 (calc based on 19 Y, 5 W, and 2 C residues)
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 !|Type!!Residues!!Description!!Notes
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 <beststructure>
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 </beststructure>
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 View models at:
@@ Line 986: / Line 986: @@
 * [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26428.Y46aaccb0bb9e0&page=26428&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26428.Y46aaccb0bb9e0&page=26428&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table]</span> ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.26428.Y46aaccb0bb9e0-->
@@ Line 1,027: / Line 1,027: @@
 *
 ****************************************************************************************** -->{{Product_resources_help}}
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{|   id="X46aaccb23fe78"  class=" tableEdit Product_resource_table"
-|- {{table_heading_style}}
+|-
 !|Resource type!!Source!!Notes/Reference
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26428.X46aaccb23fe78&page=26428&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26428.X46aaccb23fe78&page=26428&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.26428.X46aaccb23fe78-->
@@ Line 1,049: / Line 1,049: @@
 *
 ****************************************************************************************** -->{{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="T46aaccb29fad3"  class=" tableEdit Gene_accessions_table"
-|- {{table_heading_style}}
+|-
 !|Database!!Accession!!Notes
 |-
@@ Line 1,088: / Line 1,088: @@
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26428.T46aaccb29fad3&page=26428&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26428.T46aaccb29fad3&page=26428&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.26428.T46aaccb29fad3-->
@@ Line 1,106: / Line 1,106: @@
 *
 ****************************************************************************************** -->
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{|   id="C46aaccb7c2b24"  class=" tableEdit Links_table"
-|- {{table_heading_style}}
+|-
 !|Name!!URL!!Comments
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26428.C46aaccb7c2b24&page=26428&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26428.C46aaccb7c2b24&page=26428&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
 |}
 <!--box uid=421aa90e079fa326b6494f812ad13e79.26428.C46aaccb7c2b24-->

parC:Gene Product(s): Difference between revisions

Revision as of 02:34, 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

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