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O83409

- TOP1_TREPA

UniProt

O83409 - TOP1_TREPA

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Protein

DNA topoisomerase 1

Gene

topA

Organism
Treponema pallidum (strain Nichols)
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 bindingi23 – 231Magnesium 1; catalyticUniRule annotation
Sitei47 – 471Interaction with DNAUniRule annotation
Metal bindingi96 – 961Magnesium 1; catalyticUniRule annotation
Metal bindingi96 – 961Magnesium 2UniRule annotation
Metal bindingi98 – 981Magnesium 2UniRule annotation
Sitei154 – 1541Interaction with DNAUniRule annotation
Sitei155 – 1551Interaction with DNAUniRule annotation
Sitei158 – 1581Interaction with DNAUniRule annotation
Sitei163 – 1631Interaction with DNAUniRule annotation
Sitei170 – 1701Interaction with DNAUniRule annotation
Active sitei312 – 3121O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei314 – 3141Interaction with DNAUniRule annotation
Sitei501 – 5011Interaction with DNAUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri591 – 61727C4-type 1Add
BLAST
Zinc fingeri628 – 65730C4-type 2Add
BLAST
Zinc fingeri670 – 69627C4-type 3Add
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

BioCyciTPAL243276:GC1H-420-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:TP_0394
OrganismiTreponema pallidum (strain Nichols)
Taxonomic identifieri243276 [NCBI]
Taxonomic lineageiBacteriaSpirochaetesSpirochaetalesSpirochaetaceaeTreponema
ProteomesiUP000000811: Chromosome

Subcellular locationi

GO - Cellular componenti

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 731731DNA topoisomerase 1PRO_0000145170Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

IntActiO83409. 2 interactions.
STRINGi243276.TP0394.

Structurei

3D structure databases

ProteinModelPortaliO83409.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini17 – 130114ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni178 – 1836Interaction 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 fingeri591 – 61727C4-type 1Add
BLAST
Zinc fingeri628 – 65730C4-type 2Add
BLAST
Zinc fingeri670 – 69627C4-type 3Add
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiCOG0551.
KOiK03168.
OMAiKEYNNWQ.
OrthoDBiEOG6S7XQ9.

Family and domain databases

Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 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.
IPR013825. Topo_IA_cen_sub2.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd_dom.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
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. 3 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O83409-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MEVRGLQPKR QKTFARKHLV IVESPAKAQT IEKYLGTQYV VRASMGHVID
60 70 80 90 100
LPKSRLAIDI EHDFQPEYIT VRGRAQCLKE LRTLSKQSLQ VFLASDRDRE
110 120 130 140 150
GEAIAYHLAQ SIQAYCDTPI KRIVFNEITP HAIRAAIGHP VPIDTAKVNA
160 170 180 190 200
QKARRVLDRL VGYHLCPLLW HKVKNGLSAG RVQSVALRLI CEREVEVKRF
210 220 230 240 250
VPEEYWTVEG TFEKDKKSFS ALLILIQGKK AVFKSKQEAT SAIGLFSQSE
260 270 280 290 300
ARVSQIRSFE KNVRPKQPFT TSTLQQCAAN RLGFTSRKTM QVAQQLYEGV
310 320 330 340 350
SLGTHRVGLI TYMRTDSVRV SEAAVKEVRA WIATHFSDAL PGTPNRYAAK
360 370 380 390 400
GKSQDAHEAI RPTYVAHTPE RIKAHLTRDQ IRLYTLIWER FVASQMTDAR
410 420 430 440 450
VRSLTFEITA GPAVFSATET QVIEQGFYRV LKMLSPKDLS KAVLPPTKEG
460 470 480 490 500
EVVALHNVQS VQHFTQGPVR YTDASIVKML EEKGIGRPST YAPTISVLLD
510 520 530 540 550
RYYVTRIQKQ LMPTPLGKVI SDLLTTYFHD VVDVSFTARM ESKLDEVEED
560 570 580 590 600
KIKWNCVIAD FYPAFSEKVS TVMKDLNSMR GVFDEKTDVV CSQCGDTMVK
610 620 630 640 650
KLGRFGFFLA CGKFPECRNT QPVPLAKCPR PACDGNIVGK KTRGRKEFYG
660 670 680 690 700
CTRFPVCDFV THFKPTFAVC PQCRCFLVEK SNRRVGTYTA CVNPECRYVS
710 720 730
PTRKNLSLGK EAVLDGSHRG AQDKGAVQHY E
Length:731
Mass (Da):82,441
Last modified:November 1, 1998 - v1
Checksum:iC0F0C6C3DDD16F29
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000520 Genomic DNA. Translation: AAC65378.1.
PIRiD71332.
RefSeqiNP_218834.1. NC_000919.1.
YP_008091243.1. NC_021490.2.

Genome annotation databases

EnsemblBacteriaiAAC65378; AAC65378; TP_0394.
GeneIDi15851683.
2610767.
KEGGitpa:TP0394.
tpw:TPANIC_0394.
PATRICi20530797. VBITrePal57110_0418.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000520 Genomic DNA. Translation: AAC65378.1 .
PIRi D71332.
RefSeqi NP_218834.1. NC_000919.1.
YP_008091243.1. NC_021490.2.

3D structure databases

ProteinModelPortali O83409.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi O83409. 2 interactions.
STRINGi 243276.TP0394.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC65378 ; AAC65378 ; TP_0394 .
GeneIDi 15851683.
2610767.
KEGGi tpa:TP0394.
tpw:TPANIC_0394.
PATRICi 20530797. VBITrePal57110_0418.

Phylogenomic databases

eggNOGi COG0551.
KOi K03168.
OMAi KEYNNWQ.
OrthoDBi EOG6S7XQ9.

Enzyme and pathway databases

BioCyci TPAL243276:GC1H-420-MONOMER.

Family and domain databases

Gene3Di 1.10.460.10. 2 hits.
2.70.20.10. 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.
IPR013825. Topo_IA_cen_sub2.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd_dom.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
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. 3 hits.
[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 TIGR01051. topA_bact. 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: Nichols.

Entry informationi

Entry nameiTOP1_TREPA
AccessioniPrimary (citable) accession number: O83409
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: November 1, 1998
Last modified: October 29, 2014
This is version 107 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