B3Q9Y2 (B3Q9Y2_RHOPT) Unreviewed, UniProtKB/TrEMBL

Names and origin

Protein names

Recommended name:
DNA topoisomerase RuleBase RU000518
EC=5.99.1.2 RuleBase RU000518

Gene names

Ordered Locus Names:

Rpal_3535

Organism

Rhodopseudomonas palustris (strain TIE-1) [Complete proteome] [HAMAP]

Taxonomic identifier

395960 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Bradyrhizobiaceae › Rhodopseudomonas

Protein attributes

Sequence length	911 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. SAAS SAAS000380
Catalytic activity	ATP-independent breakage of single-stranded DNA, followed by passage and rejoining. RuleBase RU000518 SAAS SAAS005733
Sequence similarities	Belongs to the prokaryotic type I/III topoisomerase family. RuleBase RU004206 Contains 1 Toprim domain. SAAS SAAS023406

Ontologies

Keywords
Ligand	ATP-binding SAAS SAAS005733 DNA-binding RuleBase RU000518 SAAS SAAS005733 Nucleotide-binding
Molecular function	Isomerase Topoisomerase SAAS SAAS005733 RuleBase RU000518
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
Complete GO annotation...

Sequences

	Sequence		Length	Mass (Da)
	B3Q9Y2 [UniParc]. Last modified September 2, 2008. Version 1. Checksum: B50A46BAFA1159BB	FASTA	911	98,933
	10 20 30 40 50 60 MNLVIVESPA KAKTINKYLG SSYEVLASFG HVRDLPAKNG SVDPDADFQM IWEVDPKAAS 70 80 90 100 110 120 RLNDIAKALK GADKLILATD PDREGEAISW HVLEVMKQKR ALKDQQVERV VFNAITKQSV 130 140 150 160 170 180 TDAMKHPRQI DGALVDAYMA RRALDYLVGF TLSPVLWRKL PGARSAGRVQ SVALRLVCDR 190 200 210 220 230 240 ETEIEKFVPR EYWSLVATMA TPRGETFEAR LVGADGKKIQ RLDIGTGAEA EDFKKAIEAA 250 260 270 280 290 300 NFRVATVEAK PARRNPYAPF TTSTLQQEAS RKLGFAPAHT MRVAQRLYEG VDIGGETVGL 310 320 330 340 350 360 ITYMRTDGVQ IDSSAITQAR KVIAEDFGNA YVPDAPRQYT AKAKNAQEAH EAIRPTDLSR 370 380 390 400 410 420 RPSDVSRNLD SDQARLYELI WIRTVASQME SAELERTTVD IEAKAGSRVL ELRATGQVVK 430 440 450 460 470 480 FDGFLAAYQE GRDDDSEDED SRRLPAMSEN EALKREALAV TQHFTEPPPR FSEASLVKRM 490 500 510 520 530 540 EELGIGRPST YASILQVLKD RGYVRLEKKR LHGEDKGRVV VAFLESFFTR YVEYDFTAGL 550 560 570 580 590 600 EEDLDRISNN EVSWKQVLSD FWRDFIGAVD EIKDLRVAQV LDVLDEMLGP HIYPAREDGG 610 620 630 640 650 660 DPRQCPSCGN GRLNLKAGKF GAFVGCTNYP ECRYTRPLAA DGGADADRVL GTDPDTGLEV 670 680 690 700 710 720 AVKSGRFGPY IQLGEAKDYG EGEKPKRAGI PKGTSPSDVE LDVALKLLAL PREVGKHPES 730 740 750 760 770 780 GQPIKAGIGR FGPYVQHEKT YASLEAGDDV HTIGLNRAVT LIAEKVAKGP SKGRFGADPG 790 800 810 820 830 840 KALGDHPTLG AVAVKKGRYG AYVTAGGVNA TIPNDKTDET ITLPEAIVLL DERAAKGGGK 850 860 870 880 890 900 AKKAPAKKSA AKKASADGEA KPVKKAAAKK AKPKAEGAAA SKARAPVAAK TAAKKAAKPK 910 DAAKSSAAKN G

References

[1]

"Complete sequence of Rhodopseudomonas palustris TIE-1." Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Chain P., Malfatti S., Shin M., Vergez L., Lang D., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N. , Emerson D., Newman D.K., Roden E., Richardson P. Submitted (MAY-2008) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: TIE-1.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001096 Genomic DNA. Translation: ACF02035.1.
RefSeq	YP_001992510.1. NC_011004.1.
3D structure databases
ProteinModelPortal	B3Q9Y2.
ModBase	Search...
Protein-protein interaction databases
STRING	B3Q9Y2.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	6411209.
GenomeReviews	Gene locus Rpal_3535 in contig CP001096_GR.
KEGG	rpt:Rpal_3535.
PATRIC	23311570. VBIRhoPal88240_3584.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HBG512935.
OMA	KKVMPRL.
ProtClustDB	PRK07561.
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

B3Q9Y2_RHOPT

Accession

Primary (citable) accession number: B3Q9Y2

Entry history

Integrated into UniProtKB/TrEMBL:	September 2, 2008
Last sequence update:	September 2, 2008
Last modified:	December 14, 2011
This is version 33 of the entry and version 1 of the sequence. [Complete history]

Entry status

Unreviewed (UniProtKB/TrEMBL)