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Protein

DNA topoisomerase 3

Gene

topB

Organism
Aeromonas hydrophila subsp. hydrophila (strain ATCC 7966 / DSM 30187 / JCM 1027 / KCTC 2358 / NCIMB 9240)
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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi7 – 71Magnesium 1; catalyticUniRule annotation
Metal bindingi103 – 1031Magnesium 1; catalyticUniRule annotation
Metal bindingi103 – 1031Magnesium 2UniRule annotation
Metal bindingi105 – 1051Magnesium 2UniRule annotation
Active sitei326 – 3261O-(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

BioCyciAHYD380703:GH2M-4047-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 annotationImported
Ordered Locus Names:AHA_4047Imported
OrganismiAeromonas hydrophila subsp. hydrophila (strain ATCC 7966 / DSM 30187 / JCM 1027 / KCTC 2358 / NCIMB 9240)Imported
Taxonomic identifieri380703 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAeromonadalesAeromonadaceaeAeromonas
Proteomesi
  • UP000000756 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
Sitei183 – 1831Interaction with DNAUniRule annotation
Sitei328 – 3281Interaction with DNAUniRule annotation

Protein-protein interaction databases

STRINGi380703.AHA_4047.

Structurei

3D structure databases

ProteinModelPortaliA0KQC1.
SMRiA0KQC1. Positions 1-608.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 136136ToprimInterPro annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni192 – 1976Interaction with DNAUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4108IYH. Bacteria.
COG0550. LUCA.
HOGENOMiHOG000086848.
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.

A0KQC1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRLFIAEKPS LGRAIADVLP KPHKKGDGFI ETAQGDVVTW CIGHLLEQAE
60 70 80 90 100
PDAYDAAYKQ WRMESLPIVP SQWQLVAKPK TKTQLTVIKR LLKQADCVVN
110 120 130 140 150
AGDPDREGQL LVDEVIDFLG YGKTRPVLRC LISDLNPPAV RRALDKLRDN
160 170 180 190 200
KEFVPLAVSA LARSRADWLY GINMTRAYTL LGRKGGCSEL LSVGRVQTPL
210 220 230 240 250
LGLVVRRDLE IEAFVPKPFF EVLAHLQTEG NERFSAKWLP SEACLPWQDE
260 270 280 290 300
EGRVLNRALA AKVVERIQGQ PALVEEVEEQ ARKQAAPLPY NLSSLQIDAA
310 320 330 340 350
KRFGMDAKRV LDVCQGLYER HKLITYPRSD SRHLPSDHFN RAGQVREAIA
360 370 380 390 400
STAPALAKAV SEADGKIRSK AWNDGKVDAH HAIIPTEKQG NPATLGADEA
410 420 430 440 450
KLYGLIARQY LLQFYPPFEY NDSKVLLRIA GGLFQAKARR ILKAGWKALL
460 470 480 490 500
GVEEDDDEEK AGTLPALKEG EQLLCERGAL LEKMTQAPKS FTDATLLAAM
510 520 530 540 550
TGIARYVQDP EIRKTLRETD GLGTEATRAG IIDLLFKRRF LVRQGKSIKG
560 570 580 590 600
TPTGRALILA LPATATTPDM TALWEQHLGR IAERQTSYQQ FMGPLTEQLN
610 620 630 640 650
GLIDGARQDS GASFSALPKA VPGADKRRFT KRKRSTAAGG TSGTAKRGSK

RPAKAA
Length:656
Mass (Da):72,338
Last modified:December 12, 2006 - v1
Checksum:iB30DAACDE64B5700
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000462 Genomic DNA. Translation: ABK37134.1.
RefSeqiWP_011707714.1. NC_008570.1.
YP_858472.1. NC_008570.1.

Genome annotation databases

EnsemblBacteriaiABK37134; ABK37134; AHA_4047.
GeneIDi4487556.
KEGGiaha:AHA_4047.
PATRICi20785772. VBIAerHyd135212_4005.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000462 Genomic DNA. Translation: ABK37134.1.
RefSeqiWP_011707714.1. NC_008570.1.
YP_858472.1. NC_008570.1.

3D structure databases

ProteinModelPortaliA0KQC1.
SMRiA0KQC1. Positions 1-608.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi380703.AHA_4047.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABK37134; ABK37134; AHA_4047.
GeneIDi4487556.
KEGGiaha:AHA_4047.
PATRICi20785772. VBIAerHyd135212_4005.

Phylogenomic databases

eggNOGiENOG4108IYH. Bacteria.
COG0550. LUCA.
HOGENOMiHOG000086848.
KOiK03169.
OMAiRKVGYQG.
OrthoDBiEOG60CWM6.

Enzyme and pathway databases

BioCyciAHYD380703:GH2M-4047-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: ATCC 7966 / DSM 30187 / JCM 1027 / KCTC 2358 / NCIMB 9240Imported.

Entry informationi

Entry nameiA0KQC1_AERHH
AccessioniPrimary (citable) accession number: A0KQC1
Entry historyi
Integrated into UniProtKB/TrEMBL: December 12, 2006
Last sequence update: December 12, 2006
Last modified: July 6, 2016
This is version 81 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.