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Protein

DNA topoisomerase 1

Gene

topA

Organism
Xylella fastidiosa (strain 9a5c)
Status
Reviewed-Annotation score: -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

Mg2+UniRule annotationNote: Binds two Mg2+ per subunit.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi9Magnesium 1; catalyticUniRule annotation1
Metal bindingi82Magnesium 1; catalyticUniRule annotation1
Metal bindingi82Magnesium 2UniRule annotation1
Metal bindingi84Magnesium 2UniRule annotation1
Active sitei308O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, Isomerase, Topoisomerase
LigandMagnesium, Metal-binding

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:XF_0920
OrganismiXylella fastidiosa (strain 9a5c)
Taxonomic identifieri160492 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
Proteomesi
  • UP000000812 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451721 – 815DNA topoisomerase 1Add BLAST815

Proteomic databases

PRIDEiQ9PEV8

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei33Interaction with DNAUniRule annotation1
Sitei143Interaction with DNAUniRule annotation1
Sitei144Interaction with DNAUniRule annotation1
Sitei147Interaction with DNAUniRule annotation1
Sitei159Interaction with DNAUniRule annotation1
Sitei310Interaction with DNAUniRule annotation1
Sitei505Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi160492.XF0920

Structurei

3D structure databases

ProteinModelPortaliQ9PEV8
SMRiQ9PEV8
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 119ToprimUniRule annotationAdd BLAST117

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni167 – 172Interaction with DNAUniRule annotation6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C73 Bacteria
COG0550 LUCA
COG1754 LUCA
KOiK03168
OMAiPECKYTR
OrthoDBiPOG091H02BN

Family and domain databases

CDDicd00186 TOP1Ac, 1 hit
cd03363 TOPRIM_TopoIA_TopoI, 1 hit
Gene3Di1.10.290.10, 1 hit
1.10.460.10, 2 hits
2.70.20.10, 2 hits
HAMAPiMF_00952 Topoisom_1_prok, 1 hit
InterProiView protein in 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
IPR013826 Topo_IA_cen_sub3
IPR023405 Topo_IA_core_domain
IPR003602 Topo_IA_DNA-bd_dom
IPR005733 TopoI_bac-type
IPR028612 Topoisom_1_IA
IPR025589 Toprim_C_rpt
IPR006171 TOPRIM_domain
IPR034149 TOPRIM_TopoI
PANTHERiPTHR42785 PTHR42785, 1 hit
PfamiView protein in Pfam
PF01131 Topoisom_bac, 1 hit
PF01751 Toprim, 1 hit
PF13368 Toprim_C_rpt, 3 hits
PRINTSiPR00417 PRTPISMRASEI
SMARTiView protein in SMART
SM00437 TOP1Ac, 1 hit
SM00436 TOP1Bc, 1 hit
SM00493 TOPRIM, 1 hit
SUPFAMiSSF56712 SSF56712, 1 hit
TIGRFAMsiTIGR01051 topA_bact, 1 hit
PROSITEiView protein in PROSITE
PS00396 TOPOISOMERASE_I_PROK, 1 hit
PS50880 TOPRIM, 1 hit

Sequencei

Sequence statusi: Complete.

Q9PEV8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPKHLLIVES PAKAKTINKY LGKDFTVLAS YGHVRDLVPK EGAVDPENGF
60 70 80 90 100
AMRYDLIDKN EKHVEAITKA AKTADSIYLA TDPDREGEAI SWHISEILKE
110 120 130 140 150
RGLLKDKPMQ RIVFTEITPR AIKEAIQKPR MIASDLVDAQ QARRALDYLV
160 170 180 190 200
GFNLSPVLWR KVQRGLSAGR VQSPALRMIV EREEEIEAFI TREYWSIHAE
210 220 230 240 250
CAHPAQHFSA KLIKLDGQKF EQFTITDSDT AAAAQRRIQQ VAQGRLHITD
260 270 280 290 300
VTNKERKRRP APPFITSTLQ QEASRKLGFT TRKTMQIAQK LYEGIALGEE
310 320 330 340 350
GSVGLITYMR TDSVNLSLDA LSEIRDIIAR DYGTNALPDK PNVYTTKSKN
360 370 380 390 400
AQEAHEAVRP TSALRTPTQV APYLSNEEHR LYELVWKRAV ASQMIPAILN
410 420 430 440 450
TTSVDLAAGN EHVFRATGTT VVVQGFLAVY EEGKDNKNAE DDDEGRKLPV
460 470 480 490 500
MKTGENVPLE RILTEQHFTQ PPPRYTEAAL VKALEEYGIG RPSTYASIIQ
510 520 530 540 550
TLLFRKYVDM EGRSFRPTDI GRAVSKFLAS HFTRYVDYDF TAHLEDELDA
560 570 580 590 600
ISRGEEEWIP LMKKFWVPFK ELVEDKKDSL DKTDAGSVRL LGIDPTSGKE
610 620 630 640 650
VSGRIGRFGP MVQIGTVDDE EKPRFASLRP NQSIYSISLE EAIELFKMPR
660 670 680 690 700
VLGEDQSQQV SVGIGRFGPF AKRGSTYVSL KSEDDPYTID LARATFLINE
710 720 730 740 750
KEEIARNRII KNFENSQIQV LNGRFGPYIS DGKLNGKIPK DREPASLTLE
760 770 780 790 800
EAQQLLIDTG KPARKNFSTK KTATKNETRK QTTKKRTTDA KATKKVSDKP
810
VKKQIKKRIA PNITE
Length:815
Mass (Da):91,803
Last modified:October 1, 2000 - v1
Checksum:i65BC01306E1EB1C5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE003849 Genomic DNA Translation: AAF83730.1
PIRiB82746
RefSeqiWP_010893440.1, NC_002488.3

Genome annotation databases

EnsemblBacteriaiAAF83730; AAF83730; XF_0920
GeneIDi33197858
KEGGixfa:XF_0920

Similar proteinsi

Entry informationi

Entry nameiTOP1_XYLFA
AccessioniPrimary (citable) accession number: Q9PEV8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 16, 2003
Last sequence update: October 1, 2000
Last modified: May 23, 2018
This is version 103 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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