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Protein

DNA topoisomerase 1

Gene

topA

Organism
Rickettsia conorii (strain ATCC VR-613 / Malish 7)
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:RC0449
OrganismiRickettsia conorii (strain ATCC VR-613 / Malish 7)
Taxonomic identifieri272944 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiaspotted fever group
Proteomesi
  • UP000000816 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451621 – 776DNA topoisomerase 1Add BLAST776

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

Structurei

3D structure databases

ProteinModelPortaliQ92IH1.
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

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.

Q92IH1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLVIVESPA KAKTINKYLG DEFKVIASFG HIRDLPSKKG SVLPDENFAM
60 70 80 90 100
KYDISDKAGK YVDAIVKDAK KADAVYLATD PDREGESISW HVAEVIKEKN
110 120 130 140 150
QVKSDDFFKR VAFNEITKKA IIHAVENPRK LDTNLVNAQQ ARRALDYLVG
160 170 180 190 200
FTLSPLLWRK LPGCKSAGRV QSVALRLICE REDEIERFKS EEYWDISLKM
210 220 230 240 250
QNSNNELFTA KLTHVNDQKL EKFSIINEKN AKDLTKKLKS HKFHVDKIEK
260 270 280 290 300
KQQKRQPQPP FITSSLQQEA ARKLGFSAKK TMQIAQKLYE GVDIGKETIG
310 320 330 340 350
LITYMRTDGV TLSNDAIADI RKLIDKSYGD KYLPTSPRIY KSKVKNAQEA
360 370 380 390 400
HEAIRPTNIT YTPDSLKEKL DKDYYKLYEL IWKRTIACQM ENVIMDLVVA
410 420 430 440 450
NLASENKEYL AKANGSTIAF DGFYKVYRES MDDEAEEENK MLPPLKEQEP
460 470 480 490 500
LKTKAVIPNQ HFTEPPPRYS EASLVKKLEE LGIGRPSTYA SILSVLQDRK
510 520 530 540 550
YVALEKKRFI PEELGRLVTV FLVGFFKKYV EYDFTAGLEN ELDAIAAGKL
560 570 580 590 600
EWKAALNNFW SGFNHNIESV NEQKITEIIS YVQKALDYHL FGENKESKIC
610 620 630 640 650
PSCNTGELSL KLGKFGAFLA CSNYPECTFR KSIVSGNDNN ENEGEPAAMP
660 670 680 690 700
NENKVLGTDK DGVEIYLKKG PYGPYIQLGK QEGKVKPKRS PVPASLNQND
710 720 730 740 750
ITLDIALKLL SLPLKIGIHK DSDEEIMIGY GKFGPYIKYM GQFISVQKKY
760 770
DFLNLSLDDA MKLIEENKAK LEKKQA
Length:776
Mass (Da):88,145
Last modified:December 1, 2001 - v1
Checksum:i2EB182D7A4BB68FA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE006914 Genomic DNA. Translation: AAL02987.1.
PIRiA97756.
RefSeqiWP_010977095.1. NC_003103.1.

Genome annotation databases

EnsemblBacteriaiAAL02987; AAL02987; RC0449.
GeneIDi927585.
KEGGirco:RC0449.
PATRICi17888111. VBIRicCon45613_0511.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE006914 Genomic DNA. Translation: AAL02987.1.
PIRiA97756.
RefSeqiWP_010977095.1. NC_003103.1.

3D structure databases

ProteinModelPortaliQ92IH1.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL02987; AAL02987; RC0449.
GeneIDi927585.
KEGGirco:RC0449.
PATRICi17888111. VBIRicCon45613_0511.

Phylogenomic databases

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_RICCN
AccessioniPrimary (citable) accession number: Q92IH1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 11, 2002
Last sequence update: December 1, 2001
Last modified: September 7, 2016
This is version 106 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 conorii
    (strain Malish 7): 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.