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
Rickettsia typhi (strain ATCC VR-144 / Wilmington)
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 bindingi7Magnesium 1; catalyticUniRule annotation1
Metal bindingi80Magnesium 1; catalyticUniRule annotation1
Metal bindingi80Magnesium 2UniRule annotation1
Metal bindingi82Magnesium 2UniRule annotation1
Active sitei304O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri600 – 627C4-typeAdd BLAST28

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:RT0317
OrganismiRickettsia typhi (strain ATCC VR-144 / Wilmington)
Taxonomic identifieri257363 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiatyphus group
Proteomesi
  • UP000000604 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002731061 – 779DNA topoisomerase 1Add BLAST779

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei31Interaction with DNAUniRule annotation1
Sitei142Interaction with DNAUniRule annotation1
Sitei143Interaction with DNAUniRule annotation1
Sitei146Interaction with DNAUniRule annotation1
Sitei158Interaction with DNAUniRule annotation1
Sitei306Interaction with DNAUniRule annotation1
Sitei499Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi257363.RT0317.

Structurei

3D structure databases

ProteinModelPortaliQ68X45.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1 – 111ToprimUniRule annotationAdd BLAST111

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni166 – 171Interaction 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 fingeri600 – 627C4-typeAdd BLAST28

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
COG1754. LUCA.
HOGENOMiHOG000004020.
KOiK03168.
OMAiVEACIGH.
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.
IPR025589. Toprim_C_rpt.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF13368. Toprim_C_rpt. 2 hits.
PF01396. zf-C4_Topoisom. 1 hit.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 2 hits.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q68X45-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLVIVESPA KAKTINKYLG DEFKVIASFG HIRDLPSKKG SVLPDKNFAM
60 70 80 90 100
EYDISDKASK YVDAIVKYAR KAEAVYLATD PDREGESISW HVAEVIKEKN
110 120 130 140 150
KVESDDFFKR VAFNEITKKA IIHAVENPRK LDTNLVNAQQ ARRALDYLVG
160 170 180 190 200
FTLSPLLWRK LPGCKSAGRV QSVALRLICD REDEIERFKA EEYWDISLKM
210 220 230 240 250
QNSNNELFTA KLTHVNDQKL KKFSIINEKE AKDLTRKLKL QKFYVEKIEK
260 270 280 290 300
KQQKRQPQPP FITSSLQQEA ARKLGFSAKK TMQIAQKLYE GVDIGKETIG
310 320 330 340 350
LITYMRTDGV TLSNDAIADI RKLIDKNYGN KYLPINPRIY QSKVKNAQEA
360 370 380 390 400
HEAIRPTNIT YTPDNLKQKL EKDYYKLYEL IWQRTIACQM ENVIMDLVIA
410 420 430 440 450
NLASENKEYL AKANGSIIAF DGFYKVYRES LDDEDEEDNK MLPPLKAQEH
460 470 480 490 500
IKTKEVIPNK HFTEPPPRYS EASLVKKLEE LGIGRPSTYA SILSVLQDRK
510 520 530 540 550
YVTLEKKRFI PEELGRLVTV FLVGFFKKYV EYDFTAGLEN ELDEIAAGKL
560 570 580 590 600
EWKTSLNNFW SGFNNNIESV NEQKITEIIN YLQKALDYHL FGENKESKVC
610 620 630 640 650
PSCKTGQLSL KLGKFGAFLA CSNYPECTFK KSIVSGNDNN EDEGNLSTIL
660 670 680 690 700
NDNKILGTDK DGVEIYLKTG PYGPYIQLGE QCGKVKPKRT PVPTNLKQSE
710 720 730 740 750
ITLEVALKLL SLPLKIGIHK DSGEEIIIGY SKFGPYIKYM CKFISVPKKY
760 770
DFLNLNLDDA IKLIENNKAK LEKKHRSMV
Length:779
Mass (Da):89,083
Last modified:October 11, 2004 - v1
Checksum:iD300A268969CEA89
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017197 Genomic DNA. Translation: AAU03797.1.
RefSeqiWP_011190781.1. NC_006142.1.

Genome annotation databases

EnsemblBacteriaiAAU03797; AAU03797; RT0317.
KEGGirty:RT0317.
PATRICi17909828. VBIRicTyp34752_0329.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017197 Genomic DNA. Translation: AAU03797.1.
RefSeqiWP_011190781.1. NC_006142.1.

3D structure databases

ProteinModelPortaliQ68X45.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi257363.RT0317.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAU03797; AAU03797; RT0317.
KEGGirty:RT0317.
PATRICi17909828. VBIRicTyp34752_0329.

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
COG1754. LUCA.
HOGENOMiHOG000004020.
KOiK03168.
OMAiVEACIGH.
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.
IPR025589. Toprim_C_rpt.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF13368. Toprim_C_rpt. 2 hits.
PF01396. zf-C4_Topoisom. 1 hit.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 2 hits.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTOP1_RICTY
AccessioniPrimary (citable) accession number: Q68X45
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 23, 2007
Last sequence update: October 11, 2004
Last modified: November 2, 2016
This is version 86 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. Rickettsia typhi
    Rickettsia typhi (strain Wilmington): entries and gene names
  2. 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.