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Protein

DNA topoisomerase 1

Gene

topA

Organism
Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H) (Methanobacterium thermoautotrophicum)
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 bindingi15Magnesium 1; catalyticUniRule annotation1
Metal bindingi113Magnesium 1; catalyticUniRule annotation1
Metal bindingi113Magnesium 2UniRule annotation1
Metal bindingi115Magnesium 2UniRule annotation1
Active sitei320O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri598 – 626C4-type 1Add BLAST29
Zinc fingeri680 – 706C4-type 2Add BLAST27

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:MTH_1624
OrganismiMethanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H) (Methanobacterium thermoautotrophicum)
Taxonomic identifieri187420 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanobacteriaMethanobacterialesMethanobacteriaceaeMethanothermobacter
Proteomesi
  • UP000005223 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451791 – 718DNA topoisomerase 1Add BLAST718

Proteomic databases

PRIDEiO27661

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei59Interaction with DNAUniRule annotation1
Sitei172Interaction with DNAUniRule annotation1
Sitei176Interaction with DNAUniRule annotation1
Sitei322Interaction with DNAUniRule annotation1
Sitei505Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi187420.MTH1624

Structurei

3D structure databases

ProteinModelPortaliO27661
SMRiO27661
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini9 – 151ToprimUniRule annotationAdd BLAST143

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni202 – 207Interaction with DNAUniRule annotation6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri598 – 626C4-type 1Add BLAST29
Zinc fingeri680 – 706C4-type 2Add BLAST27

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiarCOG01527 Archaea
COG0550 LUCA
COG0551 LUCA
KOiK03168
OMAiPECKYTR
OrthoDBiPOG093Z01PG

Family and domain databases

CDDicd00186 TOP1Ac, 1 hit
cd03362 TOPRIM_TopoIA_TopoIII, 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
IPR013498 Topo_IA_Znf
IPR005739 TopoI_arch
IPR028612 Topoisom_1_IA
IPR006171 TOPRIM_domain
IPR034144 TOPRIM_TopoIII
PANTHERiPTHR11390 PTHR11390, 1 hit
PfamiView protein in Pfam
PF01131 Topoisom_bac, 1 hit
PF01751 Toprim, 1 hit
PF01396 zf-C4_Topoisom, 2 hits
PRINTSiPR00417 PRTPISMRASEI
SMARTiView protein in SMART
SM00437 TOP1Ac, 1 hit
SM00436 TOP1Bc, 1 hit
SM00493 TOPRIM, 1 hit
SUPFAMiSSF56712 SSF56712, 1 hit
TIGRFAMsiTIGR01057 topA_arch, 1 hit
PROSITEiView protein in PROSITE
PS00396 TOPOISOMERASE_I_PROK, 1 hit
PS50880 TOPRIM, 1 hit

Sequencei

Sequence statusi: Complete.

O27661-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRSLSGKMHE VIICEKPKSS EKIAGALFPD AMKKKHGKVS YWEHVEGDKR
60 70 80 90 100
VTIVSAVGHL YSLRPRQSNE EHFFDLEWAP IHEIDKKKGY VKDYLNVIRK
110 120 130 140 150
FAAGADRYIH ACDYDIEGTL IGFNALKYGC GEEALRKTSR MKFSTLTREE
160 170 180 190 200
IQRAYKNPIE VDYGQVDSGA ARHILDFIFG VNISRSLMKS VKAATNRFIK
210 220 230 240 250
LSAGRVQTPT LAILVEREKE IRDFKPVPYW IIRAELGEGI IAESKRGKIF
260 270 280 290 300
KRELVDSILE KCQGSDAEVK DVRVRDTIRK PPVPFDLGTL QSEAYRVFGF
310 320 330 340 350
SPKKTQTIAQ NLYTEGYTSY PRTSSQKLPE SIGYEKILKN LAKNPRFGVH
360 370 380 390 400
IERLRGPLKP HEGKKEDDAH PAIHPTGLLP SELSKDEKKV YDLIVHRFIS
410 420 430 440 450
VFGEDAILQT MKVELEIGEE EFSFSRKRVS KAGWMESYPY TKMEDEEFPE
460 470 480 490 500
ISGGDSLAVR SVSADERETK PPARYNEASL IRELERRGLG TKSTRADIIA
510 520 530 540 550
KLYDRKYIEG KKIRVSPLGE NIIDTLTRYC EKIISEELTR QFERELEDIM
560 570 580 590 600
RGKISKDRVI DEAITEVRSI LSDIEENLRD IGKELYRAYQ DSRVVGECPA
610 620 630 640 650
CGGKLVIKYS PRNRSTFVGC SSYPDCRTVY SLPRGASVLK SLCEKCGLPM
660 670 680 690 700
ISYGRPRQRA CLDPKCGKKK SEVEEVVGKC PECGSDLIKR SGRYGEFVGC
710
KGFPKCRFTC SVDEVPEG
Length:718
Mass (Da):81,521
Last modified:January 1, 1998 - v1
Checksum:i88507CAED59C0307
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000666 Genomic DNA Translation: AAB86097.1
PIRiA69084

Genome annotation databases

EnsemblBacteriaiAAB86097; AAB86097; MTH_1624
KEGGimth:MTH_1624
PATRICifig|187420.15.peg.1588

Similar proteinsi

Entry informationi

Entry nameiTOP1_METTH
AccessioniPrimary (citable) accession number: O27661
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: January 1, 1998
Last modified: May 23, 2018
This is version 131 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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Main funding by: National Institutes of Health