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Protein

DNA topoisomerase 1

Gene

topA

Organism
Staphylococcus haemolyticus (strain JCSC1435)
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 sitei298O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri577 – 603C4-type 1Add BLAST27
Zinc fingeri617 – 645C4-type 2Add BLAST29
Zinc fingeri658 – 681C4-type 3Add BLAST24

GO - Molecular functioni

GO - Biological processi

Keywordsi

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

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:SH1664
OrganismiStaphylococcus haemolyticus (strain JCSC1435)
Taxonomic identifieri279808 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcaceaeStaphylococcus
Proteomesi
  • UP000000543 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002859461 – 689DNA topoisomerase 1Add BLAST689

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei33Interaction with DNAUniRule annotation1
Sitei139Interaction with DNAUniRule annotation1
Sitei140Interaction with DNAUniRule annotation1
Sitei143Interaction with DNAUniRule annotation1
Sitei148Interaction with DNAUniRule annotation1
Sitei155Interaction with DNAUniRule annotation1
Sitei300Interaction with DNAUniRule annotation1
Sitei488Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi279808.SH1664

Structurei

3D structure databases

ProteinModelPortaliQ4L5V2
SMRiQ4L5V2
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 113ToprimUniRule annotationAdd BLAST111

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni163 – 168Interaction with DNAUniRule annotation6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri577 – 603C4-type 1Add BLAST27
Zinc fingeri617 – 645C4-type 2Add BLAST29
Zinc fingeri658 – 681C4-type 3Add BLAST24

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiENOG4105C73 Bacteria
COG0550 LUCA
COG0551 LUCA
HOGENOMiHOG000004018
KOiK03168
OMAiPECKYTR
OrthoDBiPOG091H02BN

Family and domain databases

CDDicd00186 TOP1Ac, 1 hit
cd03363 TOPRIM_TopoIA_TopoI, 1 hit
Gene3Di1.10.290.101 hit
1.10.460.102 hits
2.70.20.102 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
IPR013498 Topo_IA_Znf
IPR005733 TopoI_bac-type
IPR028612 Topoisom_1_IA
IPR006171 TOPRIM_domain
IPR034149 TOPRIM_TopoI
PANTHERiPTHR42785 PTHR42785, 1 hit
PfamiView protein in Pfam
PF01131 Topoisom_bac, 1 hit
PF01751 Toprim, 1 hit
PF01396 zf-C4_Topoisom, 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.

Q4L5V2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADNLVIVES PAKAKTIEKY LGKKYKVIAS MGHVRDLPRS QMGVDVEDNY
60 70 80 90 100
EPKYITIRGK GPVVKDLKKY AKKAKNVFLA SDPDREGEAI AWHLSKILEL
110 120 130 140 150
DDSKENRVVF NEITKDAVKE SFKHPRGIEM DLVDAQQARR ILDRLVGYNI
160 170 180 190 200
SPVLWKKVKK GLSAGRVQSV ALRLVIDREN EIRNFKPEEY WSIEGEFRYK
210 220 230 240 250
KSKFTAKFLH YKNKPFKLKT KKDVEKVTAE LDGDKFEITN VNKKEKTRNP
260 270 280 290 300
ANPFTTSTLQ QEAARKLNFK ARKTMMLAQQ LYEGIDLKRQ GTVGLITYMR
310 320 330 340 350
TDSTRISQTA KDEAKQYIED KYGKDYLSNR TAKGKQGDQD AHEAIRPTST
360 370 380 390 400
LRTPYEMKAY LTRDQHRLYK LIWERFVASQ MAPAILDTVA LDVTQNNIKF
410 420 430 440 450
RANGQTIKFK GFMTLYVEAK DDKDNEKENK LPNLSKGDEV TATQIEPAQH
460 470 480 490 500
FTQPPPRYTE ARLVKTLEEL KIGRPSTYAP TIDTIQKRNY VKLESKRFVP
510 520 530 540 550
TELGEIVYEQ VKDYFPEIID VEFTVNMETL LDKIAEGDIG WRKVIDNFYG
560 570 580 590 600
SFKLDVERAE EEMEKVEIKD EPAGEDCEVC GSPMVIKMGR YGKFMACSNF
610 620 630 640 650
PDCRNTKAIV KTIGVTCPKC KDGDVVERKS KKNRLFYGCS NYPECDFISW
660 670 680
DKPVGRDCPK CNHYLMEHKK GRSSQVICSN CDYKEEVQK
Length:689
Mass (Da):79,373
Last modified:August 2, 2005 - v1
Checksum:iC41C302CDCE30145
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006716 Genomic DNA Translation: BAE04973.1
RefSeqiWP_011275950.1, NC_007168.1

Genome annotation databases

EnsemblBacteriaiBAE04973; BAE04973; SH1664
GeneIDi24248069
KEGGisha:SH1664

Similar proteinsi

Entry informationi

Entry nameiTOP1_STAHJ
AccessioniPrimary (citable) accession number: Q4L5V2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 2007
Last sequence update: August 2, 2005
Last modified: April 25, 2018
This is version 105 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