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Protein

DNA topoisomerase 1

Gene

topA

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: -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 bindingi107Magnesium 1; catalyticUniRule annotation1
Metal bindingi107Magnesium 2UniRule annotation1
Metal bindingi109Magnesium 2UniRule annotation1
Active sitei317O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri606 – 634C4-type 1Add BLAST29
Zinc fingeri653 – 678C4-type 2; atypicalAdd BLAST26

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, Isomerase, Topoisomerase
LigandMagnesium, Metal-binding, Zinc

Enzyme and pathway databases

BioCyciPHOR70601:G1G39-609-MONOMER

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:PH0622
OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Taxonomic identifieri70601 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000752 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451811 – 686DNA topoisomerase 1Add BLAST686

Proteomic databases

PRIDEiO58356

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei52Interaction with DNAUniRule annotation1
Sitei166Interaction with DNAUniRule annotation1
Sitei170Interaction with DNAUniRule annotation1
Sitei319Interaction with DNAUniRule annotation1
Sitei507Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi70601.PH0622

Structurei

3D structure databases

ProteinModelPortaliO58356
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1 – 141ToprimUniRule annotationAdd BLAST141

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni196 – 201Interaction with DNAUniRule annotation6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri606 – 634C4-type 1Add BLAST29
Zinc fingeri653 – 678C4-type 2; atypicalAdd BLAST26

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiarCOG01527 Archaea
COG0550 LUCA
COG0551 LUCA
HOGENOMiHOG000004019
KOiK03168
OMAiPECKYTR
OrthoDBiPOG093Z01PG

Family and domain databases

CDDicd00186 TOP1Ac, 1 hit
cd03362 TOPRIM_TopoIA_TopoIII, 1 hit
Gene3Di1.10.290.10, 1 hit
1.10.460.10, 2 hits
2.70.20.10, 2 hits
HAMAPiMF_00952 Topoisom_1_prok, 1 hit
InterProiView protein in InterPro
IPR000380 Topo_IA
IPR003601 Topo_IA_2
IPR023406 Topo_IA_AS
IPR013497 Topo_IA_cen
IPR013824 Topo_IA_cen_sub1
IPR013825 Topo_IA_cen_sub2
IPR013826 Topo_IA_cen_sub3
IPR023405 Topo_IA_core_domain
IPR003602 Topo_IA_DNA-bd_dom
IPR013498 Topo_IA_Znf
IPR005739 TopoI_arch
IPR028612 Topoisom_1_IA
IPR006171 TOPRIM_domain
IPR034144 TOPRIM_TopoIII
PANTHERiPTHR11390 PTHR11390, 1 hit
PfamiView protein in Pfam
PF01131 Topoisom_bac, 1 hit
PF01751 Toprim, 1 hit
PF01396 zf-C4_Topoisom, 1 hit
PRINTSiPR00417 PRTPISMRASEI
SMARTiView protein in SMART
SM00437 TOP1Ac, 1 hit
SM00436 TOP1Bc, 1 hit
SM00493 TOPRIM, 1 hit
SUPFAMiSSF56712 SSF56712, 2 hits
TIGRFAMsiTIGR01057 topA_arch, 1 hit
PROSITEiView protein in PROSITE
PS00396 TOPOISOMERASE_I_PROK, 1 hit
PS50880 TOPRIM, 1 hit

Sequencei

Sequence statusi: Complete.

O58356-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MILIIAEKPN VARKIAGALS ERRPIKKSLF GVPYYEIFRE GKKLIVASAV
60 70 80 90 100
GHLYGLAPKR DVFGYPIFDI EWVPVYIAEK GKEYAREYIK ALSVLAKRVR
110 120 130 140 150
EFIVACDYDT EGEVIGYTAL KYACGVDPRV AKRMKFSALT KRDLLNAWRN
160 170 180 190 200
LEPTINFGMA NAGIARHILD WYWGVNLSRA LTHAIKKASG KWVVLSTGRV
210 220 230 240 250
QGPTLKFLVE REREIQSFVP RPYWVIKLIF EKNGQKFTAN YEKDKIWEEE
260 270 280 290 300
EGKRIVLEVK KSIPRVSNVE IKRQKRTPPH PFDLGTLQRE AYSAFGFSPK
310 320 330 340 350
KTLDIAQSLY EKGFSSYPRT ESQKLPRNIN FRMIIQNLAK MPQYRPYAHI
360 370 380 390 400
LLGLPELKPV EGKKEDPAHP AIYPTGEIPR PGDLTKDEEK LYDMIVRRFL
410 420 430 440 450
AVFMEPAIRE SVKVTIRAGP HKFFLSGGRT VKKGWLSVYG KYVKFEEVTL
460 470 480 490 500
PEFFIGERIK VIQVKREKKK TKPPARYSPA AVIKKMEDLG LGTKATRAQI
510 520 530 540 550
LETLYQRGYI EGKKSIKVTP LGMKVIETLE KYVPEIISVE LTREFEKKME
560 570 580 590 600
LIMEGRLTKE EVIEEAKERL TKILEEFKKR ELEIGIELAK IVVGEDEVKP
610 620 630 640 650
LVVGKCPKCG GDLIVKYNKK TGKRFVGCSN WPKCDVTYPI LQRGEIIPTN
660 670 680
KTCCNGAPVV IIREEDGREF EICLDINCKD WKAKSH
Length:686
Mass (Da):78,637
Last modified:August 1, 1998 - v1
Checksum:i775D9013CADDF944
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA Translation: BAA29711.1
PIRiE71106
RefSeqiWP_010884720.1, NC_000961.1

Genome annotation databases

EnsemblBacteriaiBAA29711; BAA29711; BAA29711
GeneIDi1442954
KEGGipho:PH0622

Similar proteinsi

Entry informationi

Entry nameiTOP1_PYRHO
AccessioniPrimary (citable) accession number: O58356
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: August 1, 1998
Last modified: May 23, 2018
This is version 126 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
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Main funding by: National Institutes of Health