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Protein

DNA topoisomerase 1

Gene

topA

Organism
Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)
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 bindingi10Magnesium 1; catalyticUniRule annotation1
Metal bindingi109Magnesium 1; catalyticUniRule annotation1
Metal bindingi109Magnesium 2UniRule annotation1
Metal bindingi111Magnesium 2UniRule annotation1
Active sitei312O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri611 – 638C4-type 1Add BLAST28
Zinc fingeri673 – 700C4-type 2Add BLAST28
Zinc fingeri719 – 744C4-type 3Add BLAST26

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:Ta0063
OrganismiThermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)
Taxonomic identifieri273075 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermoplasmataThermoplasmatalesThermoplasmataceaeThermoplasma
Proteomesi
  • UP000001024 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451821 – 770DNA topoisomerase 1Add BLAST770

Proteomic databases

PRIDEiQ9HM08.

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei55Interaction with DNAUniRule annotation1
Sitei166Interaction with DNAUniRule annotation1
Sitei170Interaction with DNAUniRule annotation1
Sitei314Interaction with DNAUniRule annotation1
Sitei497Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi273075.Ta0063.

Structurei

3D structure databases

ProteinModelPortaliQ9HM08.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini4 – 140ToprimUniRule annotationAdd BLAST137

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

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri611 – 638C4-type 1Add BLAST28
Zinc fingeri673 – 700C4-type 2Add BLAST28
Zinc fingeri719 – 744C4-type 3Add BLAST26

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiarCOG01527. Archaea.
COG0550. LUCA.
COG0551. LUCA.
HOGENOMiHOG000004019.
KOiK03168.
OMAiIGLRGHI.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
Gene3Di1.10.290.10. 1 hit.
1.10.460.10. 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.
IPR013826. Topo_IA_cen_sub3.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd_dom.
IPR013498. Topo_IA_Znf.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 1 hit.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9HM08-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDGFRIIIAE KADAGRRIAY FLSGGQVKSH RAKGTSYLEF EYNGSKTYLI
60 70 80 90 100
PLSGHIVEAD FESGYSDWNK IDLSDLIDAR IVKNIKNKVA YQTLQAFRGK
110 120 130 140 150
VEEIVIATDY DREGELIGVE ALDIIKEGKE EIRRAKFSAL TKNEILDSFK
160 170 180 190 200
NLIGVNYSLA DAADARESID LIWGSVLTRF FSVTTGRLGK SFLSAGRVQT
210 220 230 240 250
PTLAIVVDRE REIQSFRPER YWTISITFDK DGQFKARYPE NIKDQDTAEK
260 270 280 290 300
IYEAIKGKNG RVSSYTSKED HIRRPAPFST TEFLREASRI GIMPTKAMSI
310 320 330 340 350
AENLYMRGLI SYPRTDNTVY PRSINLKSVL KKLENTAYSK YVKEIETFDR
360 370 380 390 400
ILPSRGRIET TDHPPIYPVD SPKEQLKGDY GRVYDLILRH FLSTLYRDGK
410 420 430 440 450
KTVAEAEIYV NGYTFKAAGQ HTTDRGWTEI YGYDPKDVYL PELTEGEDLK
460 470 480 490 500
AIDWNIQREE TKPPPRYDMS SLLKKMEELN LGTKSTRHDI IGKLIERGFI
510 520 530 540 550
EGNPVKPTPL GMAFIDAVRS VNSHIADPEM TAKLEEDMDR IEKNEMSKND
560 570 580 590 600
VVEESKKMLH EVLSHFLTKT ADVKDIITKG INAGQEIGDC PFHEGKKIMV
610 620 630 640 650
IRDRFTYTVR CEDPSCKINF RIKRNGSITL SDQKCPVCGL PMIKIIRKGQ
660 670 680 690 700
SPEIKCIDPD CSYNRENEDY GECPADHGRL VLRQSKYGKR FLGCSNYPKC
710 720 730 740 750
TVTYPLPQMG RITKTGEVCP YCGAPILALS RNGRKWKFCP NMQCEYNKKR
760 770
KPEAAVEKSV RKKGRNASKS
Length:770
Mass (Da):87,667
Last modified:March 1, 2001 - v1
Checksum:i75DA8DD7BC3B8A22
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL445063 Genomic DNA. Translation: CAC11211.1.
RefSeqiWP_010900491.1. NC_002578.1.

Genome annotation databases

EnsemblBacteriaiCAC11211; CAC11211; CAC11211.
GeneIDi1455725.
KEGGitac:Ta0063.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL445063 Genomic DNA. Translation: CAC11211.1.
RefSeqiWP_010900491.1. NC_002578.1.

3D structure databases

ProteinModelPortaliQ9HM08.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi273075.Ta0063.

Proteomic databases

PRIDEiQ9HM08.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAC11211; CAC11211; CAC11211.
GeneIDi1455725.
KEGGitac:Ta0063.

Phylogenomic databases

eggNOGiarCOG01527. Archaea.
COG0550. LUCA.
COG0551. LUCA.
HOGENOMiHOG000004019.
KOiK03168.
OMAiIGLRGHI.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
Gene3Di1.10.290.10. 1 hit.
1.10.460.10. 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.
IPR013826. Topo_IA_cen_sub3.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd_dom.
IPR013498. Topo_IA_Znf.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 1 hit.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTOP1_THEAC
AccessioniPrimary (citable) accession number: Q9HM08
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: March 1, 2001
Last modified: September 7, 2016
This is version 103 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. 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.