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Q9ZMV7 (TOP1_HELPJ) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 99. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA topoisomerase 1

EC=5.99.1.2
Alternative name(s):
DNA topoisomerase I
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
Gene names
Name:topA
Ordered Locus Names:jhp_0108
OrganismHelicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99) [Complete proteome] [HAMAP]
Taxonomic identifier85963 [NCBI]
Taxonomic lineageBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter

Protein attributes

Sequence length736 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone By similarity. HAMAP-Rule MF_00952

Catalytic activity

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining. HAMAP-Rule MF_00952

Cofactor

Magnesium. Binds two Mg2+ per subunit By similarity. HAMAP-Rule MF_00952

Subunit structure

Monomer By similarity. HAMAP-Rule MF_00952

Sequence similarities

Belongs to the type IA topoisomerase family.

Contains 1 Toprim domain.

Ontologies

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 736736DNA topoisomerase 1 HAMAP-Rule MF_00952
PRO_0000145151

Regions

Domain2 – 113112Toprim
Zinc finger572 – 59827C4-type 1 HAMAP-Rule MF_00952
Zinc finger616 – 64227C4-type 2 HAMAP-Rule MF_00952
Zinc finger663 – 68927C4-type 3 HAMAP-Rule MF_00952
Zinc finger702 – 72524C4-type 4 HAMAP-Rule MF_00952
Region163 – 1686Interaction with DNA By similarity

Sites

Active site2971O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Metal binding81Magnesium 1; catalytic By similarity
Metal binding821Magnesium 1; catalytic By similarity
Metal binding821Magnesium 2 By similarity
Metal binding841Magnesium 2 By similarity
Site321Interaction with DNA By similarity
Site1391Interaction with DNA By similarity
Site1401Interaction with DNA By similarity
Site1431Interaction with DNA By similarity
Site2991Interaction with DNA By similarity
Site4841Interaction with DNA By similarity

Sequences

Sequence LengthMass (Da)Tools
Q9ZMV7 [UniParc].

Last modified May 1, 1999. Version 1.
Checksum: 779EF5655F3C14CF

FASTA73683,263
        10         20         30         40         50         60 
MKHLIIVESP AKAKTIKNFL DKNYEVVASK GHVRDLSKFA LGIKIDETGF TPNYVVDKDH 

        70         80         90        100        110        120 
KELVKQIIEL SKKASITYIA TDEDREGEAI GYHVACLIGG KLESYPRIVF HEITQNAILN 

       130        140        150        160        170        180 
VLKTPRKIDM FKVNAQQARR LLDRIVGFKL SSLIASKITK GLSAGRVQSA ALKLVIDREK 

       190        200        210        220        230        240 
EIRPFKPLTY FTLDALFEPH LEAQLISYKG NKLKAQELID EKKAQEIKNE LEKESYIISS 

       250        260        270        280        290        300 
IIKKSKKSPT PPPFMTSTLQ QSASSLLGFS PTKTMSIAQK LYEGVATPQG VMGVITYMRT 

       310        320        330        340        350        360 
DSLNIAKEAL EEARAKILKD YGKDYLPPKA KVYSSKNKNA QEAHEAIRPT SIILEPNALK 

       370        380        390        400        410        420 
DYLKPEELKL YTLIYKRFLA SQMQDALFES QSVVVACEKG EFKASGRKLL FDGHYKILGN 

       430        440        450        460        470        480 
DDKDKLLPNL KENDPIKLEK LESNAHVTEP PARYSEASLI KVLESLGIGR PSTYAPTISL 

       490        500        510        520        530        540 
LQNRDYIKVE KKQISALESA FKVIEILEKH FEEIVDSKFS ASLEEELDNI AQNKADYQQV 

       550        560        570        580        590        600 
LKDFYYPFMD KIEAGKKNII SQKVHEKTGQ SCPKCGGELV KKNSRYGEFI ACNNYPKCKY 

       610        620        630        640        650        660 
IKQTENANDE AKQELCEKCG GEMVQKFSRN GAFLACNNYP ECKNTKSLKN TPNAKETIEG 

       670        680        690        700        710        720 
VKCPECGGDI ALKRSKKGSF YGCNNYPKCN FLSNHKPINK RCEKCHYLMS ERIYRKKKAH 

       730 
ECIQCKERVF LEEDNG 

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References

[1]"Genomic sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacter pylori."
Alm R.A., Ling L.-S.L., Moir D.T., King B.L., Brown E.D., Doig P.C., Smith D.R., Noonan B., Guild B.C., deJonge B.L., Carmel G., Tummino P.J., Caruso A., Uria-Nickelsen M., Mills D.M., Ives C., Gibson R., Merberg D. expand/collapse author list , Mills S.D., Jiang Q., Taylor D.E., Vovis G.F., Trust T.J.
Nature 397:176-180(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: J99 / ATCC 700824.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AE001439 Genomic DNA. Translation: AAD05695.1.
PIRB71972.
RefSeqNP_222829.1. NC_000921.1.

3D structure databases

ProteinModelPortalQ9ZMV7.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING85963.jhp0108.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAD05695; AAD05695; jhp_0108.
GeneID889464.
KEGGhpj:jhp0108.
PATRIC20604822. VBIHelPyl98156_0123.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0551.
KOK03168.
OMAMVYKMGR.
OrthoDBEOG6S7XQ9.
ProtClustDBPRK05582.

Enzyme and pathway databases

BioCycHPYL85963:GJB9-115-MONOMER.

Family and domain databases

Gene3D1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPMF_00952. Topoisom_1_prok.
InterProIPR000380. Topo_IA.
IPR003601. Topo_IA_2.
IPR023406. Topo_IA_AS.
IPR013497. Topo_IA_cen.
IPR013824. Topo_IA_cen_sub1.
IPR013825. Topo_IA_cen_sub2.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERPTHR11390. PTHR11390. 1 hit.
PfamPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 3 hits.
[Graphical view]
PRINTSPR00417. PRTPISMRASEI.
SMARTSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMSSF56712. SSF56712. 1 hit.
TIGRFAMsTIGR01051. topA_bact. 1 hit.
PROSITEPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameTOP1_HELPJ
AccessionPrimary (citable) accession number: Q9ZMV7
Entry history
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 1, 1999
Last modified: February 19, 2014
This is version 99 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families