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 prowazekii (strain Madrid E)
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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi7 – 71Magnesium 1; catalyticUniRule annotation
Sitei31 – 311Interaction with DNAUniRule annotation
Metal bindingi80 – 801Magnesium 1; catalyticUniRule annotation
Metal bindingi80 – 801Magnesium 2UniRule annotation
Metal bindingi82 – 821Magnesium 2UniRule annotation
Sitei142 – 1421Interaction with DNAUniRule annotation
Sitei143 – 1431Interaction with DNAUniRule annotation
Sitei146 – 1461Interaction with DNAUniRule annotation
Sitei158 – 1581Interaction with DNAUniRule annotation
Active sitei304 – 3041O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei306 – 3061Interaction with DNAUniRule annotation
Sitei499 – 4991Interaction with DNAUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri600 – 62728C4-typeAdd
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. DNA topoisomerase type I activity Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. DNA topological change Source: UniProtKB-HAMAP
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:RP326
OrganismiRickettsia prowazekii (strain Madrid E)
Taxonomic identifieri272947 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiatyphus group
ProteomesiUP000002480 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

  1. chromosome Source: InterPro
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 776776DNA topoisomerase 1PRO_0000145163Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi272947.RP326.

Structurei

3D structure databases

ProteinModelPortaliQ9ZDK2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 111111ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni166 – 1716Interaction with DNAUniRule annotation

Sequence similaritiesi

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

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri600 – 62728C4-typeAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiCOG1754.
HOGENOMiHOG000004020.
KOiK03168.
OMAiVVECDKC.
OrthoDBiEOG6S7XQ9.

Family and domain databases

Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_prok.
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. 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.

Q9ZDK2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLVIVESPA KAKTINKYLG DEFKVIASFG HIRDLPSKKG SVLPDKNFLM
60 70 80 90 100
EYDISDKAGK YVDAIVKEAR KAEVVYLATD PDREGESISW HVAEVIKEKN
110 120 130 140 150
KVESDDFFKR VAFNEITKKA IMNAVANPRK LDTNLVNAQQ ARRALDYLVG
160 170 180 190 200
FTLSPLLWRK LPGCKSAGRV QSVALRLICD REDEIERFKS EEYWDISLKM
210 220 230 240 250
QNSNNDLFTA KLTHVNDQKL KKFSIINEKE AKDLTQKLKL QKFYVEKIEK
260 270 280 290 300
KQQKRQPQPP FITSSLQQEA ARKLGFSAKK TMQIAQKLYE GVDIGKETIG
310 320 330 340 350
LITYMRTDGV TLSNDAIADI RKLIDKNYGN QYLPIKPRIY QSKVKNAQEA
360 370 380 390 400
HEAIRPTNIT YTPDSLKQKL EKDYYKLYEL IWHRTIACQM ENVIMDLVIA
410 420 430 440 450
NLASENKEYL AKANGSIIAF DGFYKVYRES LDDEDEEDNK MLPPLKEQEH
460 470 480 490 500
IKTKEVIPNK HFTEPPPRYS EASLVKKLEE LGIGRPSTYA SILSVLQDRK
510 520 530 540 550
YVALEKKRFI PEELGRLVTV FLVGFFKKYV EYDFTAGLEN ELDEIAAGKL
560 570 580 590 600
EWKTALNNFW RGFNHNIESV NEQKITEIIN YLQKALDYHL FGEDKESKVC
610 620 630 640 650
PSCKTGQLSL KLGKFGAFLA CSNYPECTFK KSIVSGNDNN EDEGDPSTIL
660 670 680 690 700
NDNKILGTDQ DGVEIYLKKG PYGPYIQLGE QCGKVKPKRT PVPANLKQSE
710 720 730 740 750
ITLEIALKLL NLPLKIGIHK DSGEEIIIGY SKFGPYIKYM CKFISVPKKY
760 770
DFLNLSLNDA MKLIQNNKAK LEKKYG
Length:776
Mass (Da):88,722
Last modified:May 1, 1999 - v1
Checksum:iC0F738A3691B7CCE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ235271 Genomic DNA. Translation: CAA14786.1.
PIRiH71688.
RefSeqiNP_220709.1. NC_000963.1.

Genome annotation databases

GeneIDi883482.
KEGGirpr:RP326.
PATRICi17901421. VBIRicPro72556_0336.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ235271 Genomic DNA. Translation: CAA14786.1.
PIRiH71688.
RefSeqiNP_220709.1. NC_000963.1.

3D structure databases

ProteinModelPortaliQ9ZDK2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272947.RP326.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi883482.
KEGGirpr:RP326.
PATRICi17901421. VBIRicPro72556_0336.

Phylogenomic databases

eggNOGiCOG1754.
HOGENOMiHOG000004020.
KOiK03168.
OMAiVVECDKC.
OrthoDBiEOG6S7XQ9.

Family and domain databases

Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_prok.
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. 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...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Madrid E.

Entry informationi

Entry nameiTOP1_RICPR
AccessioniPrimary (citable) accession number: Q9ZDK2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 1, 1999
Last modified: April 1, 2015
This is version 104 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, Reference proteome

Documents

  1. Rickettsia prowazekii
    Rickettsia prowazekii (strain Madrid E): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.