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Protein

DNA topoisomerase 3

Gene

topB

Organism
Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
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 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 sitei337O-(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:HI_0444
OrganismiHaemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
Taxonomic identifieri71421 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPasteurellalesPasteurellaceaeHaemophilus
Proteomesi
  • UP000000579 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451871 – 651DNA topoisomerase 3Add BLAST651

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei61Interaction with DNAUniRule annotation1
Sitei170Interaction with DNAUniRule annotation1
Sitei178Interaction with DNAUniRule annotation1
Sitei185Interaction with DNAUniRule annotation1
Sitei339Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi71421.HI0444.

Structurei

3D structure databases

ProteinModelPortaliP43704.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

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

Region

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

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
KOiK03169.
OMAiFCPDAEY.
PhylomeDBiP43704.

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. 3 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.

P43704-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRLFIAEKPS LARAIADVLP KPHQRGDGFI KCGDNDVVTW CVGHLLEQAE
60 70 80 90 100
PDAYDPKFKQ WRLEHLPIIP EKWQLLPRKE VKKQLSVVEK LIHQADTLVN
110 120 130 140 150
AGDPDREGQL LVDEVFSYAN LSAEKRDKIL RCLISDLNPS AVEKAVKKLQ
160 170 180 190 200
PNRNFIPLAT SALARARADW LYGINMTRAY TIRGRQTGYD GVLSVGRVQT
210 220 230 240 250
PVLGLIVRRD LEIEHFQPKD FFEVQAWVNP ESKEEKTPEK STALFSALWQ
260 270 280 290 300
PSKACEDYQD DDGRVLSKGL AEKVVKRITN QPAEVTEYKD VREKETAPLP
310 320 330 340 350
YSLSALQIDA AKRFGMSAQA VLDTCQRLYE THRLITYPRS DCRYLPEEHF
360 370 380 390 400
AERHNVLNAI STHCEAYQVL PNVILTEQRN RCWNDKKVEA HHAIIPTAKN
410 420 430 440 450
RPVNLTQEER NIYSLIARQY LMQFCPDAEY RKSKITLNIA GGTFIAQARN
460 470 480 490 500
LQTAGWKELL GKEDDTENQE PLLPIVKKGQ ILHCERGEVM SKKTQPPKPF
510 520 530 540 550
TDATLLSAMT GIARFVQDKE LKKILRETDG LGTEATRAGI IELLFKRGFL
560 570 580 590 600
TKKGRNIHST ETGRILIQAL PNIATQPDMT AHWESQLTDI SQKQATYQQF
610 620 630 640 650
MHNLNQILPD LVRFVDLNAL RQLSRIKMIK SDRAKPKSAV KKSSKSNGET

D
Length:651
Mass (Da):74,067
Last modified:November 1, 1995 - v1
Checksum:i73D1A25F0C6C4229
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L42023 Genomic DNA. Translation: AAC22103.1.
PIRiG64068.
RefSeqiNP_438605.1. NC_000907.1.
WP_005693718.1. NC_000907.1.

Genome annotation databases

EnsemblBacteriaiAAC22103; AAC22103; HI_0444.
GeneIDi949541.
KEGGihin:HI0444.
PATRICi20189441. VBIHaeInf48452_0464.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L42023 Genomic DNA. Translation: AAC22103.1.
PIRiG64068.
RefSeqiNP_438605.1. NC_000907.1.
WP_005693718.1. NC_000907.1.

3D structure databases

ProteinModelPortaliP43704.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi71421.HI0444.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC22103; AAC22103; HI_0444.
GeneIDi949541.
KEGGihin:HI0444.
PATRICi20189441. VBIHaeInf48452_0464.

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
KOiK03169.
OMAiFCPDAEY.
PhylomeDBiP43704.

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. 3 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_HAEIN
AccessioniPrimary (citable) accession number: P43704
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: November 1, 1995
Last modified: October 5, 2016
This is version 114 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. Haemophilus influenzae
    Haemophilus influenzae (strain Rd): entries and gene names
  2. 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.