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Q9UYS8

- TOP1_PYRAB

UniProt

Q9UYS8 - TOP1_PYRAB

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Protein
DNA topoisomerase 1
Gene
topA, PYRAB14290, PAB1430
Organism
Pyrococcus abyssi (strain GE5 / Orsay)
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 fingeri611 – 63929C4-type 1UniRule annotation
Add
BLAST
Zinc fingeri658 – 68225C4-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

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:PYRAB14290
ORF Names:PAB1430
OrganismiPyrococcus abyssi (strain GE5 / Orsay)
Taxonomic identifieri272844 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
ProteomesiUP000000810: Chromosome

Subcellular locationi

GO - Cellular componenti

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 685685DNA topoisomerase 1UniRule annotation
PRO_0000145180Add
BLAST

Interactioni

Subunit structurei

Monomer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi272844.PAB1430.

Structurei

3D structure databases

ProteinModelPortaliQ9UYS8.

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.
OMAiKEYNNWQ.

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.

Q9UYS8-1 [UniParc]FASTAAdd to Basket

« Hide

MILVIAEKPN VARKIAGALS ERRPIRKTIF GVPYYEVFRD GKKLIVASAV    50
GHLYGLAPKQ DFFGYPIFDI EWVPVYIAEK NKDYAKDYIK ALSVLAKRVK 100
EFIVACDYDT EGEVIGYTAL KYACGVDPSR AKRMKFSALT KRDLLNAWRN 150
LEPTINFGMA NAGIARHVLD WYWGVNLSRA LTHAIKRASG KWVVLSTGRV 200
QGPTLKFLVE REREIQSFVP KPYWVIKLVI EKNGQKLVAN YEKDKIWSEE 250
EAKKIVTEVK KSKARVSNIE VKRQKRNPPV PFDLGTLQRE AYSAFGFSPK 300
KTLDIAQSLY EKGFTSYPRT ESQKLPKNLN FRLIIQNISR MPQYRPYAHL 350
LLGMPELKPV EGKKEDPAHP AIYPTGEIPG PGDLSKDEEK LYDMIVRRFL 400
ALFMEPAVRE SVKVTILAGP HKFMLSGART VKQGWLSVYG KYIKFDEVTL 450
PEFFIGERVR VLQVRREKKK TKPPARYSPA AVIKKMEDLG IGTKATRAQI 500
LETLYQRGYI EGKKSIKVTP LGMKVIETLE KYVPEIISVE LTREFERKMD 550
LIMQGKLTKE EVIEEAKVKL TKILEEFKKR ELEIGLELAR IVVGDVKDEI 600
KEEKPIVVGK CPKCGGDLIV KYNKKTGKRF VGCSNWPKCD VTYPILQRGE 650
IIPTNKTCCN GAPVVIIRDK GRDIEICLDI KCKKW 685
Length:685
Mass (Da):78,196
Last modified:May 1, 2000 - v1
Checksum:i4888C43AB87B485D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AJ248287 Genomic DNA. Translation: CAB50334.1.
HE613800 Genomic DNA. Translation: CCE70874.1.
PIRiA75055.
RefSeqiNP_127104.1. NC_000868.1.

Genome annotation databases

EnsemblBacteriaiCAB50334; CAB50334; PAB1430.
GeneIDi1496820.
KEGGipab:PAB1430.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AJ248287 Genomic DNA. Translation: CAB50334.1 .
HE613800 Genomic DNA. Translation: CCE70874.1 .
PIRi A75055.
RefSeqi NP_127104.1. NC_000868.1.

3D structure databases

ProteinModelPortali Q9UYS8.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 272844.PAB1430.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAB50334 ; CAB50334 ; PAB1430 .
GeneIDi 1496820.
KEGGi pab:PAB1430.

Phylogenomic databases

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

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

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: GE5 / Orsay.
  2. "Re-annotation of two hyperthermophilic archaea Pyrococcus abyssi GE5 and Pyrococcus furiosus DSM 3638."
    Gao J., Wang J.
    Curr. Microbiol. 64:118-129(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENOME REANNOTATION.
    Strain: GE5 / Orsay.

Entry informationi

Entry nameiTOP1_PYRAB
AccessioniPrimary (citable) accession number: Q9UYS8
Secondary accession number(s): G8ZHN7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: May 1, 2000
Last modified: September 3, 2014
This is version 104 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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