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O58356

- TOP1_PYRHO

UniProt

O58356 - TOP1_PYRHO

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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: 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 Mg(2+) per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi7 – 71Magnesium 1; catalyticUniRule annotation
Sitei52 – 521Interaction with DNAUniRule annotation
Metal bindingi107 – 1071Magnesium 1; catalyticUniRule annotation
Metal bindingi107 – 1071Magnesium 2UniRule annotation
Metal bindingi109 – 1091Magnesium 2UniRule annotation
Sitei166 – 1661Interaction with DNAUniRule annotation
Sitei170 – 1701Interaction with DNAUniRule annotation
Active sitei317 – 3171O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei319 – 3191Interaction with DNAUniRule annotation
Sitei507 – 5071Interaction with DNAUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri606 – 63429C4-type 1Add
BLAST
Zinc fingeri653 – 67826C4-type 2; atypicalAdd
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. DNA topoisomerase type I activity Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. DNA topological change Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding, Zinc

Enzyme and pathway databases

BioCyciPHOR70601:GJWR-617-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
ProteomesiUP000000752: Chromosome

Subcellular locationi

GO - Cellular componenti

  1. chromosome Source: InterPro
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 686686DNA topoisomerase 1PRO_0000145181Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi70601.PH0622.

Structurei

3D structure databases

ProteinModelPortaliO58356.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 141141ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni196 – 2016Interaction 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 fingeri606 – 63429C4-type 1Add
BLAST
Zinc fingeri653 – 67826C4-type 2; atypicalAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiCOG0551.
HOGENOMiHOG000004019.
KOiK03168.
OMAiARFSNTE.

Family and domain databases

Gene3Di1.10.290.10. 1 hit.
1.10.460.10. 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.
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.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
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. 2 hits.
TIGRFAMsiTIGR01057. topA_arch. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

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.
RefSeqiNP_142581.1. NC_000961.1.
WP_010884720.1. NC_000961.1.

Genome annotation databases

EnsemblBacteriaiBAA29711; BAA29711; BAA29711.
GeneIDi1442954.
KEGGipho:PH0622.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA29711.1 .
PIRi E71106.
RefSeqi NP_142581.1. NC_000961.1.
WP_010884720.1. NC_000961.1.

3D structure databases

ProteinModelPortali O58356.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 70601.PH0622.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAA29711 ; BAA29711 ; BAA29711 .
GeneIDi 1442954.
KEGGi pho:PH0622.

Phylogenomic databases

eggNOGi COG0551.
HOGENOMi HOG000004019.
KOi K03168.
OMAi ARFSNTE.

Enzyme and pathway databases

BioCyci PHOR70601:GJWR-617-MONOMER.

Family and domain databases

Gene3Di 1.10.290.10. 1 hit.
1.10.460.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPi MF_00952. Topoisom_1_prok.
InterProi IPR000380. 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.
IPR005739. TopoI_arch.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view ]
PANTHERi PTHR11390. PTHR11390. 1 hit.
Pfami PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 1 hit.
[Graphical view ]
PRINTSi PR00417. PRTPISMRASEI.
SMARTi SM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view ]
SUPFAMi SSF56712. SSF56712. 2 hits.
TIGRFAMsi TIGR01057. topA_arch. 1 hit.
PROSITEi PS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.

Entry informationi

Entry nameiTOP1_PYRHO
AccessioniPrimary (citable) accession number: O58356
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: August 1, 1998
Last modified: November 26, 2014
This is version 108 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3