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Q1RIM1

- TOP1_RICBR

UniProt

Q1RIM1 - TOP1_RICBR

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Protein

DNA topoisomerase 1

Gene
topA, RBE_0712
Organism
Rickettsia bellii (strain RML369-C)
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

BioCyciRBEL336407:GJCY-733-MONOMER.
RETL1328306-WGS:GSTH-1662-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:RBE_0712
OrganismiRickettsia bellii (strain RML369-C)
Taxonomic identifieri336407 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiabelli group
ProteomesiUP000001951: Chromosome

Subcellular locationi

GO - Cellular componenti

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 800800DNA topoisomerase 1UniRule annotationPRO_0000273104Add
BLAST

Interactioni

Subunit structurei

Monomer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi336407.RBE_0712.

Structurei

3D structure databases

ProteinModelPortaliQ1RIM1.

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.

Zinc finger

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

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiCOG1754.
HOGENOMiHOG000004020.
KOiK03168.
OMAiANEGYER.
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. 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.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q1RIM1-1 [UniParc]FASTAAdd to Basket

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MKLVIVESPA KAKTINKYLG DEFKVIASFG HIRDLPSKKG SVIPDENFSM    50
KYDISEKAGK YVDAIIKDAK KAESVYLATD PDREGESISW HIAEVIKEKN 100
KVKSDDFFKR VAFNEITKKA ITHAIENPRK LDNNLVNAQQ ARRALDYLVG 150
FTLSPLLWRK LPGCKSAGRV QSVALRLICE REDEIERFKS EEYWDISLKM 200
LNSNNELFTA KLTHINDQKL EKFSITNDKE AKDLTEKLKS QNFHVDKIEK 250
KQQKRQPQPP FITSSLQQEA ARKLGFSAKK TMQIAQKLYE GVDIGKETIG 300
LITYMRTDGV TLSNDAVDEI RKLINKDYGD KYLPSSPRIY KSKVKNAQEA 350
HEAIRPTNIN YIPNDLKEKL EKDYYKLYEL IWKRTIACQM ENVIMDLVNA 400
TLASENKEYL ARANGSTIAF DGFYKVYRES IDDEAEEENK MLPPLKEQEH 450
LKTKEIIPNQ HFTEPPPRYS EASLVKKLEE LGIGRPSTYA TILSVLQDRK 500
YVTLEKKRFI PEELGRLVTV FLVGFFKKYV EYDFTAGLEN ELDEIAAGKL 550
EWKSALGNFW NGFNHNIESV NKQNITEIIS YVQQALDYHI FGENKDSKVC 600
PSCKTGELSL KLGKFGAFLA CSNYPECNFR KSIVSGNDNN EADGEAKDIV 650
NENKVLGKDK EGIEIYLKKG PYGPYIQYGE QVDSKIKPKR SPLPAGLNQN 700
DITLDMALKL LSLPLKIGNH KESGEEVLVG YGKFGPYIKY MGKFISIPKK 750
YDFLNLSLDD AMKLIEEKLN AIAAKQPNPL NMDEVTNLVD KKIKVKKTKK 800
Length:800
Mass (Da):91,229
Last modified:May 16, 2006 - v1
Checksum:i686E7F5561AF337D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000087 Genomic DNA. Translation: ABE04793.1.
RefSeqiYP_537882.1. NC_007940.1.

Genome annotation databases

EnsemblBacteriaiABE04793; ABE04793; RBE_0712.
GeneIDi3995312.
KEGGirbe:RBE_0712.
PATRICi17882904. VBIRicBel102610_0817.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000087 Genomic DNA. Translation: ABE04793.1 .
RefSeqi YP_537882.1. NC_007940.1.

3D structure databases

ProteinModelPortali Q1RIM1.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 336407.RBE_0712.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABE04793 ; ABE04793 ; RBE_0712 .
GeneIDi 3995312.
KEGGi rbe:RBE_0712.
PATRICi 17882904. VBIRicBel102610_0817.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci RBEL336407:GJCY-733-MONOMER.
RETL1328306-WGS:GSTH-1662-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. 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 TIGR01051. topA_bact. 1 hit.
PROSITEi PS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Genome sequence of Rickettsia bellii illuminates the role of amoebae in gene exchanges between intracellular pathogens."
    Ogata H., La Scola B., Audic S., Renesto P., Blanc G., Robert C., Fournier P.-E., Claverie J.-M., Raoult D.
    PLoS Genet. 2:733-744(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: RML369-C.

Entry informationi

Entry nameiTOP1_RICBR
AccessioniPrimary (citable) accession number: Q1RIM1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 23, 2007
Last sequence update: May 16, 2006
Last modified: September 3, 2014
This is version 66 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 bellii strain RML369-C
    Rickettsia bellii (strain RML369-C): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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