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Q9YB01

- TOP1_AERPE

UniProt

Q9YB01 - TOP1_AERPE

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Protein

DNA topoisomerase 1

Gene

topA

Organism
Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)
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

Magnesium. Binds two Mg2+ per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi4 – 41Magnesium 1; catalyticUniRule annotation
Sitei50 – 501Interaction with DNAUniRule annotation
Metal bindingi103 – 1031Magnesium 1; catalyticUniRule annotation
Metal bindingi103 – 1031Magnesium 2UniRule annotation
Metal bindingi105 – 1051Magnesium 2UniRule annotation
Sitei159 – 1591Interaction with DNAUniRule annotation
Sitei163 – 1631Interaction with DNAUniRule annotation
Active sitei311 – 3111O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei313 – 3131Interaction with DNAUniRule annotation
Sitei501 – 5011Interaction with DNAUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri595 – 61521C4-typeAdd
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

BioCyciAPER272557:GJD6-1209-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:APE_1794
OrganismiAeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)
Taxonomic identifieri272557 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeAeropyrum
ProteomesiUP000002518: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 673673DNA topoisomerase 1PRO_0000145176Add
BLAST

Proteomic databases

PRIDEiQ9YB01.

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi272557.APE_1794.

Structurei

3D structure databases

ProteinModelPortaliQ9YB01.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 134134ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni189 – 1946Interaction 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 fingeri595 – 61521C4-typeAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiCOG0550.
HOGENOMiHOG000004019.
KOiK03168.
OMAiSNRDFIP.

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.
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.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01057. topA_arch. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9YB01-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MVAEKPKAAA KIAYALSDGR GVLRCSEYGV PYWIVRRDGA AIVVAPSAGH
60 70 80 90 100
LFGPHTDSRG FPVFDFEWRP IFEFDRGAGY LSKFYRMLSR ILPGASLYVN
110 120 130 140 150
ACDYDIEGSV IGFKIIEAFG DVNRARRMKF STLAPQDIRR AYARMERLDV
160 170 180 190 200
EMIEAGMARS EMDWLWGINV SRALMEAARR AAGRRVILSA GRVQSPTLVE
210 220 230 240 250
AYRRWREINL HVPKASVAVK ITAEKGGGVF DARPHGWKPQ SLETARSIKS
260 270 280 290 300
ELRKNPWLAV EEVRSERSIL RPPPAFNLGD LQKEANRILG LPPLRTQSIA
310 320 330 340 350
EELYLEALIS YPRTNSQKLP PSINYRAILD KLAHGPLGRE ARELLKETGG
360 370 380 390 400
VLRPVQGSKD DPAHPAIHPT GEKPSQRLSK EHMAVYELIV RRFLAAFSRE
410 420 430 440 450
AIVSKSSVLL RDFQGRVWRA EGLRVEDLGW LKYYHYSTPG EKPMPPLDRG
460 470 480 490 500
DKARVVRVDV RVEWSQTPVR LDKASLLRWM ESVNIGTEGT RARIIETLYK
510 520 530 540 550
RGYLEGSRKS EVTPLGEAVA VIIQTLFPEL SKPDLTRRFE SMIEDIRSGR
560 570 580 590 600
RTRQEVIDMS KKTISKLLES FLDRLDTAVR EIGVSLGSVE VEAACHLCGR
610 620 630 640 650
KAVSAVSGYR LCSHHMEAFD RLRKALPNLA STISSTPREA LEAIARGRSR
660 670
AGAWVRDVAA LALRDDGLYK ALL
Length:673
Mass (Da):75,571
Last modified:November 1, 1999 - v1
Checksum:iD26799337623C584
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000002 Genomic DNA. Translation: BAA80797.1.
PIRiH72563.
RefSeqiNP_148170.1. NC_000854.2.
WP_010866597.1. NC_000854.2.

Genome annotation databases

EnsemblBacteriaiBAA80797; BAA80797; APE_1794.
GeneIDi1446244.
KEGGiape:APE_1794.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000002 Genomic DNA. Translation: BAA80797.1 .
PIRi H72563.
RefSeqi NP_148170.1. NC_000854.2.
WP_010866597.1. NC_000854.2.

3D structure databases

ProteinModelPortali Q9YB01.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 272557.APE_1794.

Proteomic databases

PRIDEi Q9YB01.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAA80797 ; BAA80797 ; APE_1794 .
GeneIDi 1446244.
KEGGi ape:APE_1794.

Phylogenomic databases

eggNOGi COG0550.
HOGENOMi HOG000004019.
KOi K03168.
OMAi SNRDFIP.

Enzyme and pathway databases

BioCyci APER272557:GJD6-1209-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.
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.
[Graphical view ]
PRINTSi PR00417. PRTPISMRASEI.
SMARTi SM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view ]
SUPFAMi SSF56712. SSF56712. 1 hit.
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 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1.

Entry informationi

Entry nameiTOP1_AERPE
AccessioniPrimary (citable) accession number: Q9YB01
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: November 1, 1999
Last modified: October 29, 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, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3