parC:Gene Product(s): Difference between revisions

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Table edited by Azweifel via TableEdit
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IDA: Inferred from Direct Assay
IDA: Inferred from Direct Assay
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P
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complete
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GO:0007062
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sister chromatid cohesion
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PMID:18765793
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IMP: Inferred from Mutant Phenotype
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Revision as of 18:22, 24 July 2009

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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

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:0003677

DNA binding

GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000004
PMID:18023670[9]

IDA: Inferred from Direct Assay

InterPro:IPR002205
InterPro:IPR005742
InterPro:IPR006691
InterPro:IPR013757
InterPro:IPR013758
InterPro:IPR013760
SP_KW:KW-0238

F

Seeded from EcoCyc

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

complete

GO:0007059

chromosome segregation

PMID:2842295[7]

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc

complete

GO:0016020

membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc

complete

GO:0016853

isomerase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0413

F

Seeded from EcoCyc

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

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

complete

GO:0005737

cytoplasm

PMID:12535532[8]
PMID:1334483[10]

IDA: Inferred from Direct Assay


C

Seeded from EcoCyc

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

complete

GO:0006261

DNA-dependent DNA replication

PMID:2170028[11]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc

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

complete

GO:0019897

extrinsic to plasma membrane

PMID:1334483[10]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc

complete

GO:0006261

DNA-dependent DNA replication

PMID:2170028[11]

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[12]

IDA: Inferred from Direct Assay

F

complete

GO:0009330

DNA topoisomerase complex (ATP-hydrolyzing)

PMID:8227000[12]

IDA: Inferred from Direct Assay

C

complete

GO:0006265

DNA topological change

PMID:8227000[12]

IDA: Inferred from Direct Assay

P

complete

GO:0003677

DNA binding

PMID:16023670[13]

IDA: Inferred from Direct Assay

F

complete

GO:0030541

plasmid partitioning

PMID:8104339[14]

IDA: Inferred from Direct Assay

P

complete

GO:0007062

sister chromatid cohesion

PMID:18765793[15]

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[16]

Experiment(s):EBI-1144556

Protein

rplB

PMID:16606699[16]

Experiment(s):EBI-1144556

Protein

rplA

PMID:16606699[16]

Experiment(s):EBI-1144556

Protein

pflD

PMID:16606699[16]

Experiment(s):EBI-1144556

Protein

aceF

PMID:15690043[17]

Experiment(s):EBI-883350

Protein

lpdA

PMID:15690043[17]

Experiment(s):EBI-883350

Protein

mreB

PMID:15690043[17]

Experiment(s):EBI-883350

Protein

gyrA

PMID:15690043[17]

Experiment(s):EBI-883350

Protein

secA

PMID:15690043[17]

Experiment(s):EBI-883350

Protein

murF

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

rfaQ

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

rplL

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

rplM

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

rplV

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

rpmA

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

rpmG

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

rpsB

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

rpsJ

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

slyD

PMID:15690043[17]

Experiment(s):EBI-890645

Protein

Subunits of topoisomerase IV

could be indirect

Protein

MreB

PMID:19187760[18]


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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 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>parC 562</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

ModBase (EcoliWiki Page)

ModBase:P0AFI2

PDB (EcoliWiki Page)

PDB:1ZVT


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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. ↑ 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. ↑ 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. ↑ 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
  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 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  6. ↑ 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. ↑ 7.0 7.1 7.2 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
  8. ↑ 8.0 8.1 Espeli, O et al. (2003) Temporal regulation of topoisomerase IV activity in E. coli. Mol. Cell 11 189-201 PubMed
  9. ↑ Nakajima, T et al. (2007) The evaluation of lymph node metastasis by endobronchial ultrasound-guided transbronchial needle aspiration: crucial for selection of surgical candidates with metastatic lung tumors. J Thorac Cardiovasc Surg 134 1485-90 PubMed
  10. ↑ 10.0 10.1 10.2 10.3 10.4 Kato, J et al. (1992) Purification and characterization of DNA topoisomerase IV in Escherichia coli. J. Biol. Chem. 267 25676-84 PubMed
  11. ↑ 11.0 11.1 Kato, J et al. (1990) New topoisomerase essential for chromosome segregation in E. coli. Cell 63 393-404 PubMed
  12. ↑ 12.0 12.1 12.2 Peng, H & Marians, KJ (1993) Escherichia coli topoisomerase IV. Purification, characterization, subunit structure, and subunit interactions. J. Biol. Chem. 268 24481-90 PubMed
  13. ↑ Corbett, KD et al. (2005) The structural basis for substrate specificity in DNA topoisomerase IV. J. Mol. Biol. 351 545-61 PubMed
  14. ↑ 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
  15. ↑ Wang, X et al. (2008) Modulation of Escherichia coli sister chromosome cohesion by topoisomerase IV. Genes Dev. 22 2426-33 PubMed
  16. ↑ 16.0 16.1 16.2 16.3 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  17. ↑ 17.00 17.01 17.02 17.03 17.04 17.05 17.06 17.07 17.08 17.09 17.10 17.11 17.12 17.13 17.14 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  18. ↑ Madabhushi, R & Marians, KJ (2009) Actin homolog MreB affects chromosome segregation by regulating topoisomerase IV in Escherichia coli. Mol. Cell 33 171-80 PubMed

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