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Protein

DNA topoisomerase 3

Gene

topB

Organism
Bacillus licheniformis (strain ATCC 14580 / DSM 13 / JCM 2505 / NBRC 12200 / NCIMB 9375 / NRRL NRS-1264 / Gibson 46)
Status
Reviewed-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 annotation

Cofactori

Mg2+UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi9Magnesium; catalyticUniRule annotation1
Metal bindingi105Magnesium; catalyticUniRule annotation1
Active sitei310O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding

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:BLi00518, BL02823
OrganismiBacillus licheniformis (strain ATCC 14580 / DSM 13 / JCM 2505 / NBRC 12200 / NCIMB 9375 / NRRL NRS-1264 / Gibson 46)
Taxonomic identifieri279010 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
Proteomesi
  • UP000000606 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002863641 – 727DNA topoisomerase 3Add BLAST727

Proteomic databases

PRIDEiQ65N90.

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei61Interaction with DNAUniRule annotation1
Sitei168Interaction with DNAUniRule annotation1
Sitei176Interaction with DNAUniRule annotation1
Sitei312Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi279010.BLi00518.

Structurei

3D structure databases

ProteinModelPortaliQ65N90.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 136ToprimUniRule annotationAdd BLAST134

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni187 – 192Interaction with DNAUniRule annotation6

Sequence similaritiesi

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

Phylogenomic databases

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

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_00953. Topoisom_3_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.
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.

Q65N90-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKTVVLAEK PSVGRDLARV LKCHKKGNGY LEGDRYIVTW ALGHLVTLAD
60 70 80 90 100
PEGYGKEYQS WRLEDLPIIP EPLKLVVIKK TGKQFQAVKS QLIRKDVKDI
110 120 130 140 150
VIATDAGREG ELVARWIIEK AKVTKPLKRL WISSVTDKAI KDGFKNLKNG
160 170 180 190 200
KDFENLYHSA VARAEADWIV GINATRALTT KFNAQLSCGR VQTPTLAMIA
210 220 230 240 250
KREEDIKNFK PVPYFGLRAA VDGMTLTWQD KKTSQTRTFN ASVTSQLAGA
260 270 280 290 300
LQGKPAVIVD LKKTAKKSFA PGLYDLTELQ RDAHKRFGFS AKETLSVLQK
310 320 330 340 350
LYEQHKLVTY PRTDSRFLSN DIVPTLKDRL EGMQVKPYAQ HVARILKRGV
360 370 380 390 400
KANKSFVNDA KVSDHHAIIP TEEPLALGAL SEKERKLYDL IAKRFLAVLM
410 420 430 440 450
PPFEYEETKV FAEIGGETFT AKGKTVQSQG WKAVYDFADE DDDEEEKDQT
460 470 480 490 500
LPKLAKGDTL SVRSLTETKG ETKPPARFNE GTLLSAMENP AAFMQGEEKN
510 520 530 540 550
LVKTLGETGG LGTVATRADI IEKLFNTFLI EKKGKDIYIT SKGKQLLELV
560 570 580 590 600
PSDLKSPALT AEWEQKLSGI AKGKLKSSAF IKEMKEYAKQ TIREIKSSNQ
610 620 630 640 650
KFKHDNITGT HCPDCGKLML KVNGKRGTML VCQDRECGHR KTVAKQTNAR
660 670 680 690 700
CPVCHKRMEL RGHGEGQTFA CVCGHREKLS VFEKRRAKDK NSKASKRDVH
710 720
SYMKKQNKDE PINNALAEQL KKLKLDQ
Length:727
Mass (Da):81,504
Last modified:May 1, 2007 - v2
Checksum:i6649802B7503A542
GO

Sequence cautioni

The sequence AAU22114 differs from that shown. Reason: Erroneous initiation.Curated
The sequence AAU39474 differs from that shown. Reason: Erroneous initiation.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017333 Genomic DNA. Translation: AAU39474.1. Different initiation.
CP000002 Genomic DNA. Translation: AAU22114.2. Different initiation.

Genome annotation databases

EnsemblBacteriaiAAU22114; AAU22114; BL02823.
AAU39474; AAU39474; BLi00518.
KEGGibld:BLi00518.
bli:BL02823.
PATRICi18946539. VBIBacLic203714_0508.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017333 Genomic DNA. Translation: AAU39474.1. Different initiation.
CP000002 Genomic DNA. Translation: AAU22114.2. Different initiation.

3D structure databases

ProteinModelPortaliQ65N90.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi279010.BLi00518.

Proteomic databases

PRIDEiQ65N90.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAU22114; AAU22114; BL02823.
AAU39474; AAU39474; BLi00518.
KEGGibld:BLi00518.
bli:BL02823.
PATRICi18946539. VBIBacLic203714_0508.

Phylogenomic databases

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

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_00953. Topoisom_3_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.
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...

Entry informationi

Entry nameiTOP3_BACLD
AccessioniPrimary (citable) accession number: Q65N90
Secondary accession number(s): Q62YP4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 2007
Last sequence update: May 1, 2007
Last modified: November 2, 2016
This is version 91 of the entry and version 2 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. 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.