Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

DNA topoisomerase 1

Gene

topA

Organism
Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

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.UniRule annotation

Catalytic activityi

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.UniRule annotation

Cofactori

Mg2+UniRule annotationNote: Binds two Mg2+ per subunit.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi8Magnesium 1; catalyticUniRule annotation1
Metal bindingi82Magnesium 1; catalyticUniRule annotation1
Metal bindingi82Magnesium 2UniRule annotation1
Metal bindingi84Magnesium 2UniRule annotation1
Active sitei297O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri572 – 598C4-type 1Add BLAST27
Zinc fingeri616 – 642C4-type 2Add BLAST27
Zinc fingeri663 – 689C4-type 3Add BLAST27
Zinc fingeri702 – 725C4-type 4Add BLAST24

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1UniRule annotation (EC:5.99.1.2UniRule annotation)
Alternative name(s):
DNA topoisomerase IUniRule annotation
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
Gene namesi
Name:topAUniRule annotation
Ordered Locus Names:jhp_0108
OrganismiHelicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
Taxonomic identifieri85963 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
Proteomesi
  • UP000000804 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451511 – 736DNA topoisomerase 1Add BLAST736

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei32Interaction with DNAUniRule annotation1
Sitei139Interaction with DNAUniRule annotation1
Sitei140Interaction with DNAUniRule annotation1
Sitei143Interaction with DNAUniRule annotation1
Sitei299Interaction with DNAUniRule annotation1
Sitei484Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi85963.jhp0108.

Structurei

3D structure databases

ProteinModelPortaliQ9ZMV7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 113ToprimUniRule annotationAdd BLAST112

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni163 – 168Interaction with DNAUniRule annotation6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation
Contains 1 Toprim domain.UniRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri572 – 598C4-type 1Add BLAST27
Zinc fingeri616 – 642C4-type 2Add BLAST27
Zinc fingeri663 – 689C4-type 3Add BLAST27
Zinc fingeri702 – 725C4-type 4Add BLAST24

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
KOiK03168.
OMAiVVECDKC.
OrthoDBiPOG091H02BN.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_prok. 1 hit.
InterProiIPR000380. 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_dom.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 3 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9ZMV7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKHLIIVESP AKAKTIKNFL DKNYEVVASK GHVRDLSKFA LGIKIDETGF
60 70 80 90 100
TPNYVVDKDH KELVKQIIEL SKKASITYIA TDEDREGEAI GYHVACLIGG
110 120 130 140 150
KLESYPRIVF HEITQNAILN VLKTPRKIDM FKVNAQQARR LLDRIVGFKL
160 170 180 190 200
SSLIASKITK GLSAGRVQSA ALKLVIDREK EIRPFKPLTY FTLDALFEPH
210 220 230 240 250
LEAQLISYKG NKLKAQELID EKKAQEIKNE LEKESYIISS IIKKSKKSPT
260 270 280 290 300
PPPFMTSTLQ QSASSLLGFS PTKTMSIAQK LYEGVATPQG VMGVITYMRT
310 320 330 340 350
DSLNIAKEAL EEARAKILKD YGKDYLPPKA KVYSSKNKNA QEAHEAIRPT
360 370 380 390 400
SIILEPNALK DYLKPEELKL YTLIYKRFLA SQMQDALFES QSVVVACEKG
410 420 430 440 450
EFKASGRKLL FDGHYKILGN DDKDKLLPNL KENDPIKLEK LESNAHVTEP
460 470 480 490 500
PARYSEASLI KVLESLGIGR PSTYAPTISL LQNRDYIKVE KKQISALESA
510 520 530 540 550
FKVIEILEKH FEEIVDSKFS ASLEEELDNI AQNKADYQQV LKDFYYPFMD
560 570 580 590 600
KIEAGKKNII SQKVHEKTGQ SCPKCGGELV KKNSRYGEFI ACNNYPKCKY
610 620 630 640 650
IKQTENANDE AKQELCEKCG GEMVQKFSRN GAFLACNNYP ECKNTKSLKN
660 670 680 690 700
TPNAKETIEG VKCPECGGDI ALKRSKKGSF YGCNNYPKCN FLSNHKPINK
710 720 730
RCEKCHYLMS ERIYRKKKAH ECIQCKERVF LEEDNG
Length:736
Mass (Da):83,263
Last modified:May 1, 1999 - v1
Checksum:i779EF5655F3C14CF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE001439 Genomic DNA. Translation: AAD05695.1.
PIRiB71972.
RefSeqiWP_000681518.1. NC_000921.1.

Genome annotation databases

EnsemblBacteriaiAAD05695; AAD05695; jhp_0108.
KEGGihpj:jhp_0108.
PATRICi20604822. VBIHelPyl98156_0123.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE001439 Genomic DNA. Translation: AAD05695.1.
PIRiB71972.
RefSeqiWP_000681518.1. NC_000921.1.

3D structure databases

ProteinModelPortaliQ9ZMV7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi85963.jhp0108.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAD05695; AAD05695; jhp_0108.
KEGGihpj:jhp_0108.
PATRICi20604822. VBIHelPyl98156_0123.

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
KOiK03168.
OMAiVVECDKC.
OrthoDBiPOG091H02BN.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_prok. 1 hit.
InterProiIPR000380. 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_dom.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 3 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTOP1_HELPJ
AccessioniPrimary (citable) accession number: Q9ZMV7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 1, 1999
Last modified: November 2, 2016
This is version 115 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.