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O58356

- TOP1_PYRHO

UniProt

O58356 - TOP1_PYRHO

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Protein
DNA topoisomerase 1
Gene
topA, PH0622
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 By similarity.UniRule annotation

Catalytic activityi

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.UniRule annotation

Cofactori

Magnesium. Binds two Mg2+ per subunit By similarity.UniRule annotation

Sites

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

Regions

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

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. DNA binding Source: UniProtKB-KW
  3. DNA topoisomerase type I activity Source: UniProtKB-HAMAP
  4. 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 1 (EC:5.99.1.2)
Alternative name(s):
DNA topoisomerase I
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
Gene namesi
Name:topA
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 1UniRule annotation
PRO_0000145181Add
BLAST

Interactioni

Subunit structurei

Monomer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi70601.PH0622.

Structurei

3D structure databases

ProteinModelPortaliO58356.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 141141Toprim
Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni196 – 2016Interaction with DNA By similarity

Sequence similaritiesi

Contains 1 Toprim domain.

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.
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

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MILIIAEKPN VARKIAGALS ERRPIKKSLF GVPYYEIFRE GKKLIVASAV    50
GHLYGLAPKR DVFGYPIFDI EWVPVYIAEK GKEYAREYIK ALSVLAKRVR 100
EFIVACDYDT EGEVIGYTAL KYACGVDPRV AKRMKFSALT KRDLLNAWRN 150
LEPTINFGMA NAGIARHILD WYWGVNLSRA LTHAIKKASG KWVVLSTGRV 200
QGPTLKFLVE REREIQSFVP RPYWVIKLIF EKNGQKFTAN YEKDKIWEEE 250
EGKRIVLEVK KSIPRVSNVE IKRQKRTPPH PFDLGTLQRE AYSAFGFSPK 300
KTLDIAQSLY EKGFSSYPRT ESQKLPRNIN FRMIIQNLAK MPQYRPYAHI 350
LLGLPELKPV EGKKEDPAHP AIYPTGEIPR PGDLTKDEEK LYDMIVRRFL 400
AVFMEPAIRE SVKVTIRAGP HKFFLSGGRT VKKGWLSVYG KYVKFEEVTL 450
PEFFIGERIK VIQVKREKKK TKPPARYSPA AVIKKMEDLG LGTKATRAQI 500
LETLYQRGYI EGKKSIKVTP LGMKVIETLE KYVPEIISVE LTREFEKKME 550
LIMEGRLTKE EVIEEAKERL TKILEEFKKR ELEIGIELAK IVVGEDEVKP 600
LVVGKCPKCG GDLIVKYNKK TGKRFVGCSN WPKCDVTYPI LQRGEIIPTN 650
KTCCNGAPVV IIREEDGREF EICLDINCKD WKAKSH 686
Length:686
Mass (Da):78,637
Last modified:August 1, 1998 - v1
Checksum:i775D9013CADDF944
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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:
EMBL
GenBank
DDBJ
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.
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: September 3, 2014
This is version 105 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

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