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Protein

DNA topoisomerase 1 type prokaryotic

Gene

TOP1P

Organism
Acanthamoeba polyphaga mimivirus (APMV)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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).By similarity

Catalytic activityi

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

Cofactori

Mg2+By similarityNote: Binds two Mg2+ per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi8Magnesium 1; catalyticBy similarity1
Metal bindingi79Magnesium 1; catalyticBy similarity1
Metal bindingi79Magnesium 2By similarity1
Metal bindingi81Magnesium 2By similarity1
Active sitei302O-(5'-phospho-DNA)-tyrosine intermediateBy similarity1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1 type prokaryotic (EC:5.99.1.2)
Gene namesi
Name:TOP1P
Ordered Locus Names:MIMI_L221
OrganismiAcanthamoeba polyphaga mimivirus (APMV)
Taxonomic identifieri212035 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageMimiviridaeMimivirus
Virus hostiAcanthamoeba polyphaga (Amoeba) [TaxID: 5757]
Proteomesi
  • UP000001134 Componenti: Genome

Subcellular locationi

GO - Cellular componenti

  • virion Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451831 – 854DNA topoisomerase 1 type prokaryoticAdd BLAST854

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei32Interaction with DNABy similarity1
Sitei134Interaction with DNABy similarity1
Sitei135Interaction with DNABy similarity1
Sitei138Interaction with DNABy similarity1
Sitei143Interaction with DNABy similarity1
Sitei304Interaction with DNABy similarity1
Sitei505Interaction with DNABy similarity1

Structurei

3D structure databases

ProteinModelPortaliQ5UQB5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 110ToprimAdd BLAST109

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni158 – 163Interaction with DNABy similarity6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.Curated
Contains 1 Toprim domain.Curated

Phylogenomic databases

KOiK03168.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
Gene3Di1.10.290.10. 1 hit.
1.10.460.10. 3 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_prok. 1 hit.
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.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR025589. Toprim_C_rpt.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF01131. Topoisom_bac. 2 hits.
PF01751. Toprim. 1 hit.
PF13368. Toprim_C_rpt. 3 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 2 hits.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5UQB5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSILILLESP GKISKISSIL GKNYVVKASM GHFRDLDPKK MSIDFDNDFE
60 70 80 90 100
PVYIVTKPDV VKNLKSAMKN IDLVYLAADE DREGEAIAQS LYDVLKPSNY
110 120 130 140 150
KRLRFNAITK DAIMSAIKNA GDIDKNLVDA QKARRVLDRL FGYLISPILQ
160 170 180 190 200
RQIGGKLSAG RVQSVTVRII IDKENEIKNF INKNADSSYF KVSGTFNGAK
210 220 230 240 250
ATLHESNDKK PFDLETAYKG KTAQIALINS ENPNSKVVNF MKRCLKSQFF
260 270 280 290 300
IHSVEDKMTT RSPAPPFTTS TLQQEANRKF GMSIDSTMKT AQKLYEGGYI
310 320 330 340 350
TYMRTDSVEI SAEGHRDIKK IITDQYGADY YQKNLYKNKA ANSQEAHEAI
360 370 380 390 400
RPTHPELLTL EGEIEDAYQI KLYKLIWQRT IASQMKPAKI KVTIIQISIS
410 420 430 440 450
KYVEDKLNPF YYFQSQIETV VFPGFMKVYV ESIDDPDTDN QITKNFTGKI
460 470 480 490 500
PTVGSKVTME EIIARQEYMR PPPRYSEASL VKKLEELGIG RPSTYVNTIK
510 520 530 540 550
TIINREYVKI TDVPGIKKDI TIYSIKSENK KHIMEVYEDT DTILLGKENK
560 570 580 590 600
KIVPTNLGIT VNDFLMKYFP EFLDYKFTAN METDLDYVST GTKNWVDIVQ
610 620 630 640 650
DFYDKLKPIV DELSKQKGLS QSSERLLGED NDGNEITATK TKFGPVVRKK
660 670 680 690 700
IGDKYVYAKI KDPLTLDTIK LSDAIKLLEY PKNLGQYKGF DVLLQKGDYG
710 720 730 740 750
FYLSYNKENF SLGEIDDPED INLDTAIKAI EAKKANNIAE FNLTENGKKI
760 770 780 790 800
KAIVLNGKYG YYVQVTRNRI KKNYPIPKDL DPNNLTEQQI LSIISVKKTY
810 820 830 840 850
KKSAPKGGSK TIRKPSQTKY SQTKSTKSTK STKSTNKKFV GKSAKKTTKK

TTKK
Length:854
Mass (Da):96,946
Last modified:December 7, 2004 - v1
Checksum:i2D7361B66C8C0C0C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY653733 Genomic DNA. Translation: AAV50494.1.
RefSeqiYP_003986717.1. NC_014649.1.

Genome annotation databases

GeneIDi9924828.
KEGGivg:9924828.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY653733 Genomic DNA. Translation: AAV50494.1.
RefSeqiYP_003986717.1. NC_014649.1.

3D structure databases

ProteinModelPortaliQ5UQB5.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi9924828.
KEGGivg:9924828.

Phylogenomic databases

KOiK03168.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
Gene3Di1.10.290.10. 1 hit.
1.10.460.10. 3 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_prok. 1 hit.
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.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR025589. Toprim_C_rpt.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF01131. Topoisom_bac. 2 hits.
PF01751. Toprim. 1 hit.
PF13368. Toprim_C_rpt. 3 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 2 hits.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTOP1P_MIMIV
AccessioniPrimary (citable) accession number: Q5UQB5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 13, 2005
Last sequence update: December 7, 2004
Last modified: September 7, 2016
This is version 78 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.