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Protein

DNA topoisomerase 1

Gene

topA

Organism
Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)
Status
Reviewed-Annotation score: Annotation score: 3 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.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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi18 – 181Magnesium 1; catalyticUniRule annotation
Sitei42 – 421Interaction with DNAUniRule annotation
Metal bindingi104 – 1041Magnesium 1; catalyticUniRule annotation
Metal bindingi104 – 1041Magnesium 2UniRule annotation
Metal bindingi106 – 1061Magnesium 2UniRule annotation
Sitei160 – 1601Interaction with DNAUniRule annotation
Sitei161 – 1611Interaction with DNAUniRule annotation
Sitei164 – 1641Interaction with DNAUniRule annotation
Sitei169 – 1691Interaction with DNAUniRule annotation
Sitei176 – 1761Interaction with DNAUniRule annotation
Active sitei334 – 3341O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei336 – 3361Interaction with DNAUniRule annotation
Sitei534 – 5341Interaction with DNAUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, 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:SCO3543
ORF Names:SCH5.06c
OrganismiStreptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)
Taxonomic identifieri100226 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaStreptomycetalesStreptomycetaceaeStreptomycesStreptomyces albidoflavus group
ProteomesiUP000001973 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 952952DNA topoisomerase 1PRO_0000145166Add
BLAST

Proteomic databases

PRIDEiQ9X909.

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi100226.SCO3543.

Structurei

3D structure databases

ProteinModelPortaliQ9X909.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini12 – 135124ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni184 – 1896Interaction with DNAUniRule annotation

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation
Contains 1 Toprim domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG1754.
HOGENOMiHOG000004020.
InParanoidiQ9X909.
KOiK03168.
OMAiTKRNPGP.
OrthoDBiEOG6S7XQ9.
PhylomeDBiQ9X909.

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_dom.
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. 4 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9X909-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSPTSETAKG GRRLVIVESP AKAKTIKGYL GPGYVVEASV GHIRDLPSGA
60 70 80 90 100
AEVPEKYTGE VRRLGVDVEH DFQPIYVVNA DKKSQVKKLK DLLKESDELF
110 120 130 140 150
LATDEDREGE AIAWHLQEVL KPKIPVKRMV FHEITKDAIR AAVANPRELN
160 170 180 190 200
QKLVDAQETR RILDRLYGYE VSPVLWKKVM PRLSAGRVQS VATRLVVERE
210 220 230 240 250
RERIAFRSAE YWDLTGTFAT GRAGDASDPS SLVARLQTVD GRRVAQGRDF
260 270 280 290 300
DSLGQLKSAN TLHLDEANAR ALAAALENTR FAVRSVESKP YRRSPYAPFR
310 320 330 340 350
TTTLQQEASR KLGFGAKSTM QVAQKLYENG YITYMRTDST TLSDTAVSAA
360 370 380 390 400
RAQVTQLYGA DYLPPQPRTY AGKVKNAQEA HEAIRPSGDR FRTPAETGLT
410 420 430 440 450
GDQFKLYELI WKRTVASQMK DATGNSVTVK IGGAASDGRD VEFSASGKTI
460 470 480 490 500
TFHGFLKAYV EGADDPNAEL DDRERRLPQV AEGDALTAEE ITVDGHATKP
510 520 530 540 550
PARYTEASLV KELEEREIGR PSTYASIIGT ILDRGYVFKK GTALVPSFLS
560 570 580 590 600
FAVVNLLEKH FGRLVDYDFT ARMEDDLDRI ARGEAQSVPW LRRFYFGEGD
610 620 630 640 650
GTGGGGAADA GNGDGDHLGG LKELVTDLGA IDAREVSSFP VGNDIKLRVG
660 670 680 690 700
RYGPYVERGE KDAENHQRAD VPEDLAPDEL SVELAEELLA KPSGDFELGT
710 720 730 740 750
DPATGHAIVA KDGRYGPYVT EVLPEGTPKT GKNAVKPRTA SLFKSMSLDT
760 770 780 790 800
VTLDDALKLM SLPRVVGADA EGVEITAQNG RYGPYLKKGT DSRSLQTEDQ
810 820 830 840 850
LFEITLEEAL AIYAQPKQRG RAAAKPPLKE LGTDPVSEKP VVVKDGRFGP
860 870 880 890 900
YVTDGETNAT LRSDDSVEEI TPERGYELLA EKRAKGPAKK TAKKAVKKTA
910 920 930 940 950
AKKAPAKKAA ATKKTAAAKT TAAKKTAAKS TAKKTTAKTA AKKATASKTS

ED
Length:952
Mass (Da):103,585
Last modified:November 1, 1999 - v1
Checksum:i1C98DABD7A629295
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL939116 Genomic DNA. Translation: CAB38480.1.
PIRiT36664.
RefSeqiNP_627741.1. NC_003888.3.
WP_011029075.1. NC_003888.3.

Genome annotation databases

EnsemblBacteriaiCAB38480; CAB38480; CAB38480.
GeneIDi1098979.
KEGGisco:SCO3543.
PATRICi23736830. VBIStrCoe124346_3599.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL939116 Genomic DNA. Translation: CAB38480.1.
PIRiT36664.
RefSeqiNP_627741.1. NC_003888.3.
WP_011029075.1. NC_003888.3.

3D structure databases

ProteinModelPortaliQ9X909.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi100226.SCO3543.

Proteomic databases

PRIDEiQ9X909.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB38480; CAB38480; CAB38480.
GeneIDi1098979.
KEGGisco:SCO3543.
PATRICi23736830. VBIStrCoe124346_3599.

Phylogenomic databases

eggNOGiCOG1754.
HOGENOMiHOG000004020.
InParanoidiQ9X909.
KOiK03168.
OMAiTKRNPGP.
OrthoDBiEOG6S7XQ9.
PhylomeDBiQ9X909.

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_dom.
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. 4 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-471 / A3(2) / M145.

Entry informationi

Entry nameiTOP1_STRCO
AccessioniPrimary (citable) accession number: Q9X909
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1999
Last modified: July 22, 2015
This is version 110 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, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.