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Protein

DNA topoisomerase 1

Gene

topA

Organism
Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
Status
Reviewed-Annotation score: Annotation score: 4 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 bindingi9Magnesium 1; catalyticUniRule annotation1
Metal bindingi117Magnesium 1; catalyticUniRule annotation1
Metal bindingi117Magnesium 2UniRule annotation1
Metal bindingi119Magnesium 2UniRule annotation1
Active sitei325O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri605 – 636C4-type 1Add BLAST32
Zinc fingeri667 – 694C4-type 2Add BLAST28
Zinc fingeri716 – 739C4-type 3Add BLAST24

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1UniRule annotation (EC:5.99.1.2UniRule annotation)
Alternative name(s):
DNA topoisomerase IUniRule annotation
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
Gene namesi
Name:topAUniRule annotation
Ordered Locus Names:HI_1365
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_00001451491 – 868DNA topoisomerase 1Add BLAST868

Proteomic databases

PRIDEiP43012.

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei33Interaction with DNAUniRule annotation1
Sitei174Interaction with DNAUniRule annotation1
Sitei175Interaction with DNAUniRule annotation1
Sitei178Interaction with DNAUniRule annotation1
Sitei190Interaction with DNAUniRule annotation1
Sitei327Interaction with DNAUniRule annotation1
Sitei513Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi71421.HI1365.

Structurei

3D structure databases

ProteinModelPortaliP43012.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 148ToprimUniRule annotationAdd BLAST146

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni198 – 203Interaction with DNAUniRule annotation6

Sequence similaritiesi

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

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri605 – 636C4-type 1Add BLAST32
Zinc fingeri667 – 694C4-type 2Add BLAST28
Zinc fingeri716 – 739C4-type 3Add BLAST24

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
KOiK03168.
OMAiVVECDKC.

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_00952. Topoisom_1_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.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR013263. TopoI_Znr_bac.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF08272. Topo_Zn_Ribbon. 2 hits.
PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 2 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P43012-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKSLVIVES PAKAKTINKY LGSQYVVKSS VGHIRDLPTV GSSTGEKAKP
60 70 80 90 100
ISTKGMDAEE KAKIKAEKER NALVKRMGID PYHDWKANYQ ILPGKEKVVS
110 120 130 140 150
ELKSLAKKAD HIYLATDLDR EGEAIAWHLR EVIGGNDDRF SRVVFNEITK
160 170 180 190 200
NAIKQAFEKP EQLNMDRVNA QQTRRFLDRV VGFMVSPLLW KKVARGLSAG
210 220 230 240 250
RVQSVAVKLL VEREREIKAF QPEEYWEVAV LTNNQNKQAI RLDVTDYKGK
260 270 280 290 300
KFDPKNQKEA QSAVDFLNVS DYVVTDLETK PTSSRPRAPF ITSTLQQTAS
310 320 330 340 350
TRLGFGVKKT MMLAQRLYEA GYITYMRTDS TNLSQDALNM ARTYIENHFG
360 370 380 390 400
AQYLPEKPNF YSSKENAQEA HEAIRPSDIR ALPESLEGME KDAVRLYDLI
410 420 430 440 450
WCQFLACQMP PAQYDSSTLT VTAGDYTLKA KGRILRFDGW TKVLPQIGKN
460 470 480 490 500
PEDQELPSVT VSEKLALKEV QPTQHFTKPP ARFTEAALVK ELEKRGIGRP
510 520 530 540 550
STYAAIISTI QERGYVRTEN RRFYAEKMGE IVTDRLNESF GELMNYDFTA
560 570 580 590 600
NMEDTLDKIA SGSVNWKTEL NQFFKDFSSQ LSKAELDELE GGMRPNSLVE
610 620 630 640 650
TDIKCPTCGR NMAIRTASTG VFLGCTGYAL PPKERCKTTI NLIPEAELLN
660 670 680 690 700
VLDESSETKA LMDRKRCTKC GTAMDSYVID AHRKIHICGN NPNCDGYLIE
710 720 730 740 750
EGSFKIKGYD GPVVECDKCG ADMHLKLGRF GKYMGCTNCD NTRKILKNGE
760 770 780 790 800
VAPPKEEPVH FPELKCEKSD AYFVLRDGAS GVFMSAHNFP KSRETRPVKI
810 820 830 840 850
AELVQYRERL PEKLAYLADA PQKDPEENEA IVRFSRKEKK QYVTSEKEGK
860
ATKWIVDFTN GKWVERKK
Length:868
Mass (Da):98,144
Last modified:November 1, 1995 - v1
Checksum:iAAD604BDEBC75D20
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti343T → S in AAC23012 (PubMed:7542800).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U20964 Genomic DNA. Translation: AAC43727.1.
L42023 Genomic DNA. Translation: AAC23012.1.
PIRiG64119.
RefSeqiNP_439516.1. NC_000907.1.

Genome annotation databases

EnsemblBacteriaiAAC23012; AAC23012; HI_1365.
GeneIDi950025.
KEGGihin:HI1365.
PATRICi20191417. VBIHaeInf48452_1419.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U20964 Genomic DNA. Translation: AAC43727.1.
L42023 Genomic DNA. Translation: AAC23012.1.
PIRiG64119.
RefSeqiNP_439516.1. NC_000907.1.

3D structure databases

ProteinModelPortaliP43012.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi71421.HI1365.

Proteomic databases

PRIDEiP43012.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC23012; AAC23012; HI_1365.
GeneIDi950025.
KEGGihin:HI1365.
PATRICi20191417. VBIHaeInf48452_1419.

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
KOiK03168.
OMAiVVECDKC.

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_00952. Topoisom_1_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.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR013263. TopoI_Znr_bac.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF08272. Topo_Zn_Ribbon. 2 hits.
PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 2 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTOP1_HAEIN
AccessioniPrimary (citable) accession number: P43012
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: November 1, 1995
Last modified: November 30, 2016
This is version 131 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.