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Protein

DNA topoisomerase 3

Gene

topB

Organism
Clostridium novyi (strain NT)
Status
Unreviewed-Annotation score: Annotation score: 3 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 annotationSAAS annotation

Cofactori

Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi9 – 91Magnesium; catalyticUniRule annotation
Metal bindingi105 – 1051Magnesium; catalyticUniRule annotation
Active sitei310 – 3101O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, TopoisomeraseUniRule annotationSAAS annotation

Keywords - Ligandi

DNA-bindingUniRule annotationSAAS annotation, MagnesiumUniRule annotation, Metal-bindingUniRule annotation

Enzyme and pathway databases

BioCyciCNOV386415:GH98-1900-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 3UniRule annotation (EC:5.99.1.2UniRule annotation)
Alternative name(s):
DNA topoisomerase IIIUniRule annotation
Gene namesi
Name:topBUniRule annotation
Ordered Locus Names:NT01CX_0335Imported
OrganismiClostridium novyi (strain NT)Imported
Taxonomic identifieri386415 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesClostridiaceaeClostridium
Proteomesi
  • UP000008220 Componenti: Chromosome

Interactioni

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei61 – 611Interaction with DNAUniRule annotation
Sitei168 – 1681Interaction with DNAUniRule annotation
Sitei176 – 1761Interaction with DNAUniRule annotation
Sitei312 – 3121Interaction with DNAUniRule annotation

Protein-protein interaction databases

STRINGi386415.NT01CX_0335.

Structurei

3D structure databases

ProteinModelPortaliA0Q2I1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 136134ToprimInterPro annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni187 – 1926Interaction with DNAUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105C9U. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
HOGENOMiHOG000086847.
KOiK03169.
OMAiRKVGYQG.
OrthoDBiEOG60CWM6.

Family and domain databases

Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00953. Topoisom_3_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.
IPR005738. TopoIII.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01056. topB. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A0Q2I1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGKILILAEK PSVGRDIARV LNCKKGGNGF LEGDKYIVTW ALGHLVTLAD
60 70 80 90 100
PEAYDNKYKS WNIEDLPMIP KHLKLVVIKK SGKQFNTVKA QMNRKDVGEI
110 120 130 140 150
VIATDAGREG ELVARWIIEK AHIKKPIKRL WISSVTDKAI KDGFKNLKDG
160 170 180 190 200
REYNNLYKSA IARAEADWLV GINATRALTC KYNAQLSCGR VQTPTIAMIA
210 220 230 240 250
QREEEIKNFK PKTYYGIEAK SDKLKLVWQD SRSNDIKTFN KDKCENIIKN
260 270 280 290 300
IKNKDAKVVE VNKVKKKKFS PQLYDLTELQ RDANKIFNFS AKETLSIMQR
310 320 330 340 350
LYENHKVLTY PRTDSRYLTE DVVDTIKDRL KACGVGVYGK YANKLLKGTI
360 370 380 390 400
KGNKSFVDNT KVSDHHAIIP TEQKFALASL SDNERKIYDL VVKRFFAVLY
410 420 430 440 450
PPFEYEKTTI KAKIGEENFI AKGKVVLANG WKEVYSNDFE DDMEDELKEQ
460 470 480 490 500
ILPSINKGDS IKINSISKTT GETKPPKPFN EATLLSAMEN PVKYMSGESK
510 520 530 540 550
ELKKTIGETG GIGTVATRAD IIEKLFNTFL IEKRGKDIFI TSKGKQLLDL
560 570 580 590 600
VPEELKSPAL TAEWEQKLTA ISKGKLNKDK FLSEIKDYSK DTVNEIKNSK
610 620 630 640 650
EKFKHDNMTR VKCPECGKYM LEVNGKKGKI LVCQDRECGY RKGISRISNA
660 670 680 690 700
RCPECHKKLE LRGEGEGQIF VCKCGYREKL SAFKERKKKD SGKVSKREVN
710 720
KYLRQQQKEN DEPFNNPFAE AFKKLGLK
Length:728
Mass (Da):82,906
Last modified:January 9, 2007 - v1
Checksum:i031F462FEDFA2E48
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000382 Genomic DNA. Translation: ABK61654.1.
RefSeqiWP_011722818.1. NC_008593.1.

Genome annotation databases

EnsemblBacteriaiABK61654; ABK61654; NT01CX_0335.
KEGGicno:NT01CX_0335.
PATRICi19481214. VBICloNov112828_1866.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000382 Genomic DNA. Translation: ABK61654.1.
RefSeqiWP_011722818.1. NC_008593.1.

3D structure databases

ProteinModelPortaliA0Q2I1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi386415.NT01CX_0335.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABK61654; ABK61654; NT01CX_0335.
KEGGicno:NT01CX_0335.
PATRICi19481214. VBICloNov112828_1866.

Phylogenomic databases

eggNOGiENOG4105C9U. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
HOGENOMiHOG000086847.
KOiK03169.
OMAiRKVGYQG.
OrthoDBiEOG60CWM6.

Enzyme and pathway databases

BioCyciCNOV386415:GH98-1900-MONOMER.

Family and domain databases

Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00953. Topoisom_3_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.
IPR005738. TopoIII.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01056. topB. 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: NTImported.

Entry informationi

Entry nameiA0Q2I1_CLONN
AccessioniPrimary (citable) accession number: A0Q2I1
Entry historyi
Integrated into UniProtKB/TrEMBL: January 9, 2007
Last sequence update: January 9, 2007
Last modified: July 6, 2016
This is version 79 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

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.