Q1RIM1 (TOP1_RICBR) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA topoisomerase 1
EC=5.99.1.2

Alternative name(s):
DNA topoisomerase I
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme

Gene names

Name:	topA
Ordered Locus Names:	RBE_0712

Organism

Rickettsia bellii (strain RML369-C) [Complete proteome] [HAMAP]

Taxonomic identifier

336407 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rickettsiales › Rickettsiaceae › Rickettsieae › Rickettsia

Protein attributes

Sequence length	800 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Releases the supercoiling and torsional tension of DNA 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 than 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.
Catalytic activity	ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.
Subunit structure	Monomer By similarity.
Sequence similarities	Belongs to the type IA topoisomerase family. Contains 1 Toprim domain.

Ontologies

Keywords
Domain	Zinc-finger
Ligand	ATP-binding DNA-binding Metal-binding Nucleotide-binding Zinc
Molecular function	Isomerase Topoisomerase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	DNA topological change Inferred from electronic annotation. Source: InterPro
Cellular component	chromosome Inferred from electronic annotation. Source: InterPro
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA topoisomerase type I activity Inferred from electronic annotation. Source: EC metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 800	800	DNA topoisomerase 1		PRO_0000273104
Regions
	Domain	1 – 114	114	Toprim
	Zinc finger	600 – 627	28	C4-type
Sites
	Active site	304	1	O-(5'-phospho-DNA)-tyrosine intermediate By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q1RIM1 [UniParc]. Last modified May 16, 2006. Version 1. Checksum: 686E7F5561AF337D	FASTA	800	91,229
	10 20 30 40 50 60 MKLVIVESPA KAKTINKYLG DEFKVIASFG HIRDLPSKKG SVIPDENFSM KYDISEKAGK 70 80 90 100 110 120 YVDAIIKDAK KAESVYLATD PDREGESISW HIAEVIKEKN KVKSDDFFKR VAFNEITKKA 130 140 150 160 170 180 ITHAIENPRK LDNNLVNAQQ ARRALDYLVG FTLSPLLWRK LPGCKSAGRV QSVALRLICE 190 200 210 220 230 240 REDEIERFKS EEYWDISLKM LNSNNELFTA KLTHINDQKL EKFSITNDKE AKDLTEKLKS 250 260 270 280 290 300 QNFHVDKIEK KQQKRQPQPP FITSSLQQEA ARKLGFSAKK TMQIAQKLYE GVDIGKETIG 310 320 330 340 350 360 LITYMRTDGV TLSNDAVDEI RKLINKDYGD KYLPSSPRIY KSKVKNAQEA HEAIRPTNIN 370 380 390 400 410 420 YIPNDLKEKL EKDYYKLYEL IWKRTIACQM ENVIMDLVNA TLASENKEYL ARANGSTIAF 430 440 450 460 470 480 DGFYKVYRES IDDEAEEENK MLPPLKEQEH LKTKEIIPNQ HFTEPPPRYS EASLVKKLEE 490 500 510 520 530 540 LGIGRPSTYA TILSVLQDRK YVTLEKKRFI PEELGRLVTV FLVGFFKKYV EYDFTAGLEN 550 560 570 580 590 600 ELDEIAAGKL EWKSALGNFW NGFNHNIESV NKQNITEIIS YVQQALDYHI FGENKDSKVC 610 620 630 640 650 660 PSCKTGELSL KLGKFGAFLA CSNYPECNFR KSIVSGNDNN EADGEAKDIV NENKVLGKDK 670 680 690 700 710 720 EGIEIYLKKG PYGPYIQYGE QVDSKIKPKR SPLPAGLNQN DITLDMALKL LSLPLKIGNH 730 740 750 760 770 780 KESGEEVLVG YGKFGPYIKY MGKFISIPKK YDFLNLSLDD AMKLIEEKLN AIAAKQPNPL 790 800 NMDEVTNLVD KKIKVKKTKK

References

[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: 16703114] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: RML369-C.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000087 Genomic DNA. Translation: ABE04793.1.
RefSeq	YP_537882.1. NC_007940.1.
3D structure databases
ProteinModelPortal	Q1RIM1.
ModBase	Search...
Protein-protein interaction databases
STRING	Q1RIM1.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	3995312.
GenomeReviews	Gene locus RBE_0712 in contig CP000087_GR.
KEGG	rbe:RBE_0712.
PATRIC	17882904. VBIRicBel102610_0817.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0550.
HOGENOM	HBG512935.
OMA	EEYWSID.
ProtClustDB	PRK06599.
Enzyme and pathway databases
BioCyc	RBEL336407:RBE_0712-MONOMER.
Family and domain databases
InterPro	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. IPR006171. Toprim_domain. [Graphical view]
Gene3D	G3DSA:1.10.460.10. Topo_IA_cen_sub1. 2 hits. G3DSA:2.70.20.10. Topo_IA_cen_sub2. 2 hits.
KO	K03168.
PANTHER	PTHR11390. Topo_IA. 1 hit.
Pfam	PF01131. Topoisom_bac. 1 hit. PF01751. Toprim. 1 hit. PF01396. zf-C4_Topoisom. 1 hit. [Graphical view]
PRINTS	PR00417. PRTPISMRASEI.
SMART	SM00437. TOP1Ac. 1 hit. SM00436. TOP1Bc. 1 hit. SM00493. TOPRIM. 1 hit. [Graphical view]
SUPFAM	SSF56712. Topo_IA_core. 1 hit.
TIGRFAMs	TIGR01051. TopA_bact. 1 hit.
PROSITE	PS00396. TOPOISOMERASE_I_PROK. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

TOP1_RICBR

Accession

Primary (citable) accession number: Q1RIM1

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 23, 2007
Last sequence update:	May 16, 2006
Last modified:	January 25, 2012
This is version 46 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program