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Protein

DNA topoisomerase 3

Gene

topB

Organism
Edwardsiella ictaluri (strain 93-146)
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 annotationNote: Binds two Mg2+ per subunit.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi7Magnesium 1; catalyticUniRule annotation1
Metal bindingi103Magnesium 1; catalyticUniRule annotation1
Metal bindingi103Magnesium 2UniRule annotation1
Metal bindingi105Magnesium 2UniRule annotation1
Active sitei328O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

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

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:NT01EI_1650Imported
OrganismiEdwardsiella ictaluri (strain 93-146)Imported
Taxonomic identifieri634503 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesHafniaceaeEdwardsiella
Proteomesi
  • UP000001485 Componenti: Chromosome

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei61Interaction with DNAUniRule annotation1
Sitei170Interaction with DNAUniRule annotation1
Sitei178Interaction with DNAUniRule annotation1
Sitei185Interaction with DNAUniRule annotation1
Sitei330Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi634503.NT01EI_1650.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1 – 134ToprimInterPro annotationAdd BLAST134

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni194 – 199Interaction with DNAUniRule annotation6

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
HOGENOMiHOG000086848.
KOiK03169.
OMAiFCPDAEY.
OrthoDBiPOG091H028X.

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.

C5B9Y3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRLFIAEKPS LGRAIADVLP KPHRRADGYI QCGDGDVVTW CVGHLLEQAE
60 70 80 90 100
PDAYDARYAR WNLVDLPIVP QKWQLRPKAS SAKQLKVIER LLRDAQQVVH
110 120 130 140 150
AGDPDREGQL LVDEVLDFLA LAPEKRRQVQ RCLINDLNPQ AVARALERLR
160 170 180 190 200
DNHEFMPLCV SALARARADW LYGINMTRAY TLLGRNAGYN GVLSVGRVQT
210 220 230 240 250
PVLGLVVRRD EEIAHFVAKD YYEVRAHIVT PSGERFWAQW QPSEACEPHQ
260 270 280 290 300
DEEGRLLNRA LAEHVIARIQ DKPARVTGYN DKRESEVAPL PFSLSALQIE
310 320 330 340 350
AAKRFAMSAQ QVLDICQRLY ETHKLLTYPR SDSRHLPEEH FAGRHAVMAA
360 370 380 390 400
IATHAPTLAN LESVDVQRRN RCWDDNKVDA HHAIIPTARA GGVTLNEDER
410 420 430 440 450
NIYQLVARQY LMQFCPDAQY RKCVIDLEIE GGGFIAKARF LSQAGWRALL
460 470 480 490 500
GAKERDDEDE GMPLPVVARD DLLHCERGEL MARQTQPPRH FTDATLLSAM
510 520 530 540 550
TGIARFVQDK SLKKILRATD GLGTEATRAG IIELLFRRGF LHKKGRYIHA
560 570 580 590 600
SQTGSALIHC LPEMAGRPDM TAHWESTLTK ISERGCRYQD FMHPLVETLQ
610 620 630 640
QLIHQARTAV NPRAFRDLPP IENGRSRRTK GTTASNKRKK A
Length:641
Mass (Da):72,519
Last modified:July 28, 2009 - v1
Checksum:iA352691F50E80E77
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001600 Genomic DNA. Translation: ACR68834.1.
RefSeqiWP_015870990.1. NC_012779.2.

Genome annotation databases

EnsemblBacteriaiACR68834; ACR68834; NT01EI_1650.
GeneIDi7961978.
KEGGieic:NT01EI_1650.
PATRICi21836372. VBIEdwIct114273_1480.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001600 Genomic DNA. Translation: ACR68834.1.
RefSeqiWP_015870990.1. NC_012779.2.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi634503.NT01EI_1650.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACR68834; ACR68834; NT01EI_1650.
GeneIDi7961978.
KEGGieic:NT01EI_1650.
PATRICi21836372. VBIEdwIct114273_1480.

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
HOGENOMiHOG000086848.
KOiK03169.
OMAiFCPDAEY.
OrthoDBiPOG091H028X.

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 nameiC5B9Y3_EDWI9
AccessioniPrimary (citable) accession number: C5B9Y3
Entry historyi
Integrated into UniProtKB/TrEMBL: July 28, 2009
Last sequence update: July 28, 2009
Last modified: November 2, 2016
This is version 64 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.