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Protein

DNA topoisomerase 1

Gene

topA

Organism
Mycoplasma pneumoniae (strain ATCC 29342 / M129)
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 bindingi102Magnesium 1; catalyticUniRule annotation1
Metal bindingi102Magnesium 2UniRule annotation1
Metal bindingi104Magnesium 2UniRule annotation1
Active sitei340O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri624 – 652C4-type 1Add BLAST29
Zinc fingeri673 – 702C4-type 2Add BLAST30

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:MPN_261
ORF Names:MP572
OrganismiMycoplasma pneumoniae (strain ATCC 29342 / M129)
Taxonomic identifieri272634 [NCBI]
Taxonomic lineageiBacteriaTenericutesMollicutesMycoplasmataceaeMycoplasma
Proteomesi
  • UP000000808 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451561 – 711DNA topoisomerase 1Add BLAST711

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei33Interaction with DNAUniRule annotation1
Sitei160Interaction with DNAUniRule annotation1
Sitei164Interaction with DNAUniRule annotation1
Sitei342Interaction with DNAUniRule annotation1
Sitei535Interaction with DNAUniRule annotation1

Protein-protein interaction databases

IntActiP78032. 4 interactors.

Structurei

3D structure databases

ProteinModelPortaliP78032.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 134ToprimUniRule annotationAdd BLAST132

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni183 – 188Interaction 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 fingeri624 – 652C4-type 1Add BLAST29
Zinc fingeri673 – 702C4-type 2Add BLAST30

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

KOiK03168.
OMAiVVECDKC.

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.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 3 hits.
PfamiPF01131. 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.

P78032-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKNLVVIES PNKVKTLQKY LPNDFEIVST IGHIREMVHK NFGFNEADYS
60 70 80 90 100
PVWEDWTKSK KKFSSLSFKG NLKGKKLLSK YDIIKSIKEK ASKATNIYLA
110 120 130 140 150
TDPDREGEAI SWHVYDVLDE KDKSKCQRIT FNEITKNAVL DALKNPREID
160 170 180 190 200
QSWVQSQFAR QILDRMIGFR LSRLLNNYLS AKSAGRVQSV ALRFLEEREQ
210 220 230 240 250
EIRSFVPRFW WTLDVLLNPK AEGVREACAN RSIPIVLREI NPALRAGLKF
260 270 280 290 300
EEEKSVSGID FLDEASAKKF GEQLKGVFEV YNIDETKHYS SSPNSAYTTA
310 320 330 340 350
SLQKDAINKL GWSSKKVTLI AQHLYEGVSI NGEQTALISY PRTDSTRLSA
360 370 380 390 400
QFQQSCKEYI LNHYGEKYLS NRIVSAKGKK GEKIIQDAHE AIHPTDINIT
410 420 430 440 450
PEMVKNAIKK DEFLLYRLIW IRTVASLMAD CKKSHTHIRF INDGNKFYAS
460 470 480 490 500
SKSLVFDGYR KIYEHFENKE SNDLYIDLDK IRVGDRFMAK DIKITARQTH
510 520 530 540 550
PAARYTQASL IEALEKSNIG RPSTYNTMAS VNLDRGYASL NKHAFHVTQL
560 570 580 590 600
GEQVNEELSK HFGKIINKEF TKNMEKSLDE IAENKKNYQE FLRDFWSNFK
610 620 630 640 650
EEVKLAEGSI QRVKKEKEFV GRDCPSCASP LLYRYTKRGN EKFVGCSNFP
660 670 680 690 700
NCKYNEFSQN KPNLTLEKLE ELCPECNSQL VKRRTKFNPN KTFVGCSNFP
710
RCRYIKKDNA S
Length:711
Mass (Da):81,965
Last modified:February 1, 1997 - v1
Checksum:i16B863588B06582E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00089 Genomic DNA. Translation: AAB96220.1.
PIRiS73898.
RefSeqiNP_109949.1. NC_000912.1.
WP_010874618.1. NC_000912.1.

Genome annotation databases

EnsemblBacteriaiAAB96220; AAB96220; MPN_261.
GeneIDi877375.
KEGGimpn:MPN261.
PATRICi20021847. VBIMycPne110_0280.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00089 Genomic DNA. Translation: AAB96220.1.
PIRiS73898.
RefSeqiNP_109949.1. NC_000912.1.
WP_010874618.1. NC_000912.1.

3D structure databases

ProteinModelPortaliP78032.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP78032. 4 interactors.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB96220; AAB96220; MPN_261.
GeneIDi877375.
KEGGimpn:MPN261.
PATRICi20021847. VBIMycPne110_0280.

Phylogenomic databases

KOiK03168.
OMAiVVECDKC.

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.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 3 hits.
PfamiPF01131. 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_MYCPN
AccessioniPrimary (citable) accession number: P78032
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: February 1, 1997
Last modified: November 2, 2016
This is version 113 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. Mycoplasma pneumoniae
    Mycoplasma pneumoniae (strain M129): entries and gene names
  2. 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.