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Protein

DNA topoisomerase 1

Gene

topA

Organism
Fervidobacterium islandicum
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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi44 – 441Magnesium 1; catalyticUniRule annotation
Sitei68 – 681Interaction with DNAUniRule annotation
Metal bindingi115 – 1151Magnesium 1; catalyticUniRule annotation
Metal bindingi115 – 1151Magnesium 2UniRule annotation
Metal bindingi117 – 1171Magnesium 2UniRule annotation
Sitei170 – 1701Interaction with DNAUniRule annotation
Sitei171 – 1711Interaction with DNAUniRule annotation
Sitei174 – 1741Interaction with DNAUniRule annotation
Sitei179 – 1791Interaction with DNAUniRule annotation
Sitei186 – 1861Interaction with DNAUniRule annotation
Active sitei324 – 3241O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei326 – 3261Interaction with DNAUniRule annotation
Sitei515 – 5151Interaction with DNAUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri601 – 62424C4-typeAdd
BLAST

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
OrganismiFervidobacterium islandicum
Taxonomic identifieri2423 [NCBI]
Taxonomic lineageiBacteriaThermotogaeThermotogalesThermotogaceaeFervidobacterium

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 699699DNA topoisomerase 1PRO_0000145148Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliO34204.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini38 – 146109ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni194 – 1996Interaction with DNAUniRule annotation

Sequence similaritiesi

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

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri601 – 62424C4-typeAdd
BLAST

Keywords - Domaini

Zinc-finger

Family and domain databases

Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_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.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
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. 2 hits.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O34204-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAKSKVVEKD KKNELDNQSA DIELKGQSKN EESKGGKKKV IIVESPAKAK
60 70 80 90 100
TIERILGNDY QVISSKGHIR DLPQKQFGVD LNSLKLDFEI IPGKESVVEQ
110 120 130 140 150
IKKMTSGKEV LLPSDQDREG EAIAWHLSTI LGVKGKNIIT FTEITERAIK
160 170 180 190 200
EAVKNPREID MNKVNAQLAR RVLDRIVGYM ISPLLWRIIK DARSAGRVQS
210 220 230 240 250
AALKIICERE RERYRFVPQK YFKVWIDIAG LKAYLTKVDG KKIKPTDITE
260 270 280 290 300
EISKDVLQKV KSVRLVDIDV KEVRKNPPAP FITSTLQQDA ASKLGFPVSK
310 320 330 340 350
TMKIAQELYE GVDTKEGHTA FITYMRTDST RVSDVAKEAA EKFILKNFGR
360 370 380 390 400
EYLNESSEVA SKKGSKTKGK VQDAHECIRP VDVNITPEKA KELLDKDHHK
410 420 430 440 450
LYELIWKRFI ASQMSSAIYK QYSYDFESGK YVFEASIRER IFDGFEKVYT
460 470 480 490 500
IDNEPSEKHK ELKVDQEYLV EPKSAEAQTT PPDRYTEASL VKTLEMEGIG
510 520 530 540 550
RPSTYATIIQ TLLDRGYVVK KRKTLIPTIL GFVVNHYLEQ RFPDIVDKGF
560 570 580 590 600
TAEMEKELDE VENGKKDWKE VVKSFLKEFN KDLERAKNEF FAIDFDTDIT
610 620 630 640 650
CEDCSGNYKL KVGKYGLYLH CPNCKTNKAL KSDVFGVIDG NKLYVLEEQE
660 670 680 690
SQEENGEKNS VQSEESSANS GNRKFYRKRR TSGSKKSSTK SASSKAKKK
Length:699
Mass (Da):79,612
Last modified:January 1, 1998 - v1
Checksum:i9137E85A8A01FD2C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U97022 Genomic DNA. Translation: AAB68788.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U97022 Genomic DNA. Translation: AAB68788.1.

3D structure databases

ProteinModelPortaliO34204.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_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.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
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. 2 hits.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "DNA topoisomerases I from thermophilic eubacteria: cloning and sequencing of the DNA topoisomerase I from Fervidobacterium islandicum."
    Kaltoum H., Portemer C., Confalonieri F., Duguet M., Bouthier de La Tour C.
    Submitted (APR-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].

Entry informationi

Entry nameiTOP1_FERIS
AccessioniPrimary (citable) accession number: O34204
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: January 1, 1998
Last modified: November 26, 2014
This is version 89 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.