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Protein

DNA topoisomerase 1

Gene

topA

Organism
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Status
Reviewed-Annotation score: Annotation score: 4 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)DescriptionActionsGraphical viewLength
Metal bindingi9Magnesium 1; catalyticUniRule annotation1
Metal bindingi111Magnesium 1; catalyticUniRule annotation1
Metal bindingi111Magnesium 2UniRule annotation1
Metal bindingi113Magnesium 2UniRule annotation1
Active sitei319O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri599 – 630C4-type 1Add BLAST32
Zinc fingeri662 – 689C4-type 2Add BLAST28
Zinc fingeri711 – 736C4-type 3Add BLAST26

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, 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:STM1714
OrganismiSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Taxonomic identifieri99287 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeSalmonella
Proteomesi
  • UP000001014 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451651 – 865DNA topoisomerase 1Add BLAST865

Proteomic databases

PaxDbiP0A2I1.
PRIDEiP0A2I1.

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei33Interaction with DNAUniRule annotation1
Sitei168Interaction with DNAUniRule annotation1
Sitei169Interaction with DNAUniRule annotation1
Sitei172Interaction with DNAUniRule annotation1
Sitei177Interaction with DNAUniRule annotation1
Sitei184Interaction with DNAUniRule annotation1
Sitei321Interaction with DNAUniRule annotation1
Sitei507Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi99287.STM1714.

Structurei

3D structure databases

ProteinModelPortaliP0A2I1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 142ToprimUniRule annotationAdd BLAST140

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni192 – 197Interaction with DNAUniRule annotation6

Sequence similaritiesi

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

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri599 – 630C4-type 1Add BLAST32
Zinc fingeri662 – 689C4-type 2Add BLAST28
Zinc fingeri711 – 736C4-type 3Add BLAST26

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
HOGENOMiHOG000004018.
KOiK03168.
OMAiVVECDKC.
PhylomeDBiP0A2I1.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_prok. 1 hit.
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.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR013263. TopoI_Znr_bac.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF08272. Topo_Zn_Ribbon. 2 hits.
PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 2 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.

P0A2I1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGKALVIVES PAKAKTINKY LGNDYVVKSS VGHIRDLPTS GSAAKKSADS
60 70 80 90 100
TSTKTAKKPK KDERGALVNR MGVDPWHNWD AHYEVLPGKE KVVSELKQLA
110 120 130 140 150
EKADHIYLAT DLDREGEAIA WHLREVIGGD DARYSRVVFN EITKNAIRQA
160 170 180 190 200
FEQPGELNIN RVNAQQARRF MDRVVGYMVS PLLWKKIARG LSAGRVQSVA
210 220 230 240 250
VRLVVERERE IKAFVPEEFW EIDANTTTPS GEALPLQVTH QNDKPFRPVN
260 270 280 290 300
REQTLAAVSL LEKARYSVLE REDKPTSSKP GAPFITSTLQ QAASTRLGFG
310 320 330 340 350
VKKTMMMAQR LYEAGYITYM RTDSTNLSQD AVNMVRGYIG DNFGKKYLPD
360 370 380 390 400
NPNQYASKEN SQEAHEAIRP SDVAVMAESL KDMEADAQKL YQLIWRQFVA
410 420 430 440 450
CQMTPAQYDS TTLTVGAGEF RLKARGRILR FDGWTKVMPA LRKGDEDRTL
460 470 480 490 500
PAVNKGDALT LLELTPAQHF TKPPARFSEA SLVKELEKRG IGRPSTYASI
510 520 530 540 550
ISTIQDRGYV RVENRRFYAE KMGEIVTDRL EENFRELMNY DFTAQMEDSL
560 570 580 590 600
DQVANHQAEW KAVLDNFFSD FTQQLDKAEK DPEEGGMRPN QMVLTSIDCP
610 620 630 640 650
TCGRKMGIRT ASTGVFLGCS GYALSPKERC KTTINLVPEN EVLNVLEGDD
660 670 680 690 700
AETNALRAKR RCQKCGTAMD SYLIDPKRKL HVCGNNPTCD GYEIEEGEFR
710 720 730 740 750
IKGYDGPIVE CEKCGSEMHL KMGRFGKYMA CTNDECKNTR KILRNGEVAP
760 770 780 790 800
PKEDPVPLPE LPCEKSDAYF VLRDGAAGIF LAANTFPKSR ETRAPLVEEL
810 820 830 840 850
YRFRDRLPEK LRYLADAPQQ DPEGNKTVVR FSRKTKQQYV AAEKDGKATG
860
WSAFFVDGKW VEGKK
Length:865
Mass (Da):97,303
Last modified:March 15, 2005 - v1
Checksum:i57EE1CBA696FEF7C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE006468 Genomic DNA. Translation: AAL20632.1.
M15040 Genomic DNA. Translation: AAA27044.1.
RefSeqiNP_460673.1. NC_003197.1.
WP_000513593.1. NC_003197.1.

Genome annotation databases

EnsemblBacteriaiAAL20632; AAL20632; STM1714.
GeneIDi1253233.
KEGGistm:STM1714.
PATRICi32381943. VBISalEnt20916_1811.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE006468 Genomic DNA. Translation: AAL20632.1.
M15040 Genomic DNA. Translation: AAA27044.1.
RefSeqiNP_460673.1. NC_003197.1.
WP_000513593.1. NC_003197.1.

3D structure databases

ProteinModelPortaliP0A2I1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi99287.STM1714.

Proteomic databases

PaxDbiP0A2I1.
PRIDEiP0A2I1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL20632; AAL20632; STM1714.
GeneIDi1253233.
KEGGistm:STM1714.
PATRICi32381943. VBISalEnt20916_1811.

Phylogenomic databases

eggNOGiENOG4105C73. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
HOGENOMiHOG000004018.
KOiK03168.
OMAiVVECDKC.
PhylomeDBiP0A2I1.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_prok. 1 hit.
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.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR013263. TopoI_Znr_bac.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
PfamiPF08272. Topo_Zn_Ribbon. 2 hits.
PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 2 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...

Entry informationi

Entry nameiTOP1_SALTY
AccessioniPrimary (citable) accession number: P0A2I1
Secondary accession number(s): P40686
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 15, 2005
Last sequence update: March 15, 2005
Last modified: November 2, 2016
This is version 91 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

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 one 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.