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Q4UM42

- TOP1_RICFE

UniProt

Q4UM42 - TOP1_RICFE

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Protein

DNA topoisomerase 1

Gene
topA, RF_0530
Organism
Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)
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
Sitei31 – 311Interaction with DNA By similarity
Metal bindingi80 – 801Magnesium 1; catalytic By similarity
Metal bindingi80 – 801Magnesium 2 By similarity
Metal bindingi82 – 821Magnesium 2 By similarity
Sitei142 – 1421Interaction with DNA By similarity
Sitei143 – 1431Interaction with DNA By similarity
Sitei146 – 1461Interaction with DNA By similarity
Sitei158 – 1581Interaction with DNA By similarity
Active sitei304 – 3041O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Sitei306 – 3061Interaction with DNA By similarity
Sitei499 – 4991Interaction with DNA By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri600 – 62728C4-typeUniRule annotationAdd
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

BioCyciRFEL315456:GKEK-544-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:RF_0530
OrganismiRickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)
Taxonomic identifieri315456 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiaspotted fever group
ProteomesiUP000008548: Chromosome

Subcellular locationi

GO - Cellular componenti

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 776776DNA topoisomerase 1UniRule annotationPRO_0000273105Add
BLAST

Interactioni

Subunit structurei

Monomer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi315456.RF_0530.

Structurei

3D structure databases

ProteinModelPortaliQ4UM42.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 111111ToprimAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni166 – 1716Interaction with DNA By similarity

Sequence similaritiesi

Contains 1 Toprim domain.

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiCOG1754.
HOGENOMiHOG000004020.
KOiK03168.
OMAiPSCNTGE.
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.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR025589. Toprim_C_rpt.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF13368. Toprim_C_rpt. 2 hits.
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.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q4UM42-1 [UniParc]FASTAAdd to Basket

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MKLVIVESPA KAKTINKYLG DEFKVIASFG HIRDLPSKKG SVLPDENFAM    50
KYDISDKAGK YVDAIVKDAK KADAVYLATD PDREGEAISW HVAEVIKEKN 100
KVKSDDFFKR VAFNEITKKA IIHAVENPRK LDANLVNAQQ ARRALDYLVG 150
FTLSPLLWRK LPGCKSAGRV QSVALRLICE REDEIERFKS EEYWDISLKM 200
QNSNNELFTA KLTHVNDQKL EKFSIINEKD AKDLTEKLKS QNFHVDKIEK 250
KQQKRQPQPP FITSSLQQEA ARKLGFSAKK TMQIAQKLYE GVDIGKETIG 300
LITYMRTDGV TLSNDAIADI RKLIDKNYGD KYLPNSPRIY KSKVKNAQEA 350
HEAIRPTNIT YTPDSLKEKL EKDYYKLYEL IWKRTIACQM ENVIMDLVVA 400
SLASENKEYL AKANGSTIAF DGFYKVYRES VDDEAEEENK MLPPLKEQEP 450
LKTKEIIPNQ HFTEPPPRYS EASLVKKLEE LGIGRPSTYA SILSVLQDRK 500
YVSLEKKRFM PEELGRLVTV FLVGFFKKYV EYDFTAGLEN ELDEIAAGKL 550
EWKAALNNFW SGFNHNIESV NEQKITEIIS YVQKALDYHL FSENKESKAC 600
PSCKTGELSL KLGKFGAFLA CSNYPECTFR KSIVSGNDNN ENDGDLAATP 650
NENKVLGTDK DGIEIYLKKG PYGPYVQLGE QEGKVKPKRS PVPASLNQND 700
ITLEMALKLL SLPLKIGIHK DSGEEIMIGY GKFGPYIKYM GKFISIPKKY 750
DFLNLSLDDA MKLIEDNKAK LEKKQA 776
Length:776
Mass (Da):88,141
Last modified:July 5, 2005 - v1
Checksum:i7833BDDB544310E6
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000053 Genomic DNA. Translation: AAY61381.1.
RefSeqiYP_246546.1. NC_007109.1.

Genome annotation databases

EnsemblBacteriaiAAY61381; AAY61381; RF_0530.
GeneIDi3401192.
KEGGirfe:RF_0530.
PATRICi17891586. VBIRicFel64634_0626.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000053 Genomic DNA. Translation: AAY61381.1 .
RefSeqi YP_246546.1. NC_007109.1.

3D structure databases

ProteinModelPortali Q4UM42.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 315456.RF_0530.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAY61381 ; AAY61381 ; RF_0530 .
GeneIDi 3401192.
KEGGi rfe:RF_0530.
PATRICi 17891586. VBIRicFel64634_0626.

Phylogenomic databases

eggNOGi COG1754.
HOGENOMi HOG000004020.
KOi K03168.
OMAi PSCNTGE.
OrthoDBi EOG6S7XQ9.

Enzyme and pathway databases

BioCyci RFEL315456:GKEK-544-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.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR025589. Toprim_C_rpt.
IPR006171. Toprim_domain.
[Graphical view ]
PANTHERi PTHR11390. PTHR11390. 1 hit.
Pfami PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF13368. Toprim_C_rpt. 2 hits.
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 TIGR01051. topA_bact. 1 hit.
PROSITEi PS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "The genome sequence of Rickettsia felis identifies the first putative conjugative plasmid in an obligate intracellular parasite."
    Ogata H., Renesto P., Audic S., Robert C., Blanc G., Fournier P.-E., Parinello H., Claverie J.-M., Raoult D.
    PLoS Biol. 3:1-12(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC VR-1525 / URRWXCal2.

Entry informationi

Entry nameiTOP1_RICFE
AccessioniPrimary (citable) accession number: Q4UM42
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 23, 2007
Last sequence update: July 5, 2005
Last modified: September 3, 2014
This is version 71 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. Rickettsia felis (Rickettsia azadi)
    Rickettsia felis (strain URRWXCal2): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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