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Entry version 144 (02 Jun 2021)
Sequence version 1 (01 Jan 1998)
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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:

Annotation score:4 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>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

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

  • ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.UniRule annotation EC:5.6.2.1

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Mg2+UniRule annotationNote: Binds two Mg2+ per subunit.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi15Magnesium 1; catalyticUniRule annotation1
Metal bindingi113Magnesium 1; catalyticUniRule annotation1
Metal bindingi113Magnesium 2UniRule annotation1
Metal bindingi115Magnesium 2UniRule annotation1
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei320O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section specifies the position(s) and type(s) of zinc fingers within the protein.<p><a href='/help/zn_fing' target='_top'>More...</a></p>Zinc fingeri598 – 626C4-type 1Add BLAST29
Zinc fingeri680 – 706C4-type 2Add BLAST27

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

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

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
DNA topoisomerase 1UniRule annotation (EC:5.6.2.1UniRule annotation)
Alternative name(s):
DNA topoisomerase IUniRule annotation
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:topAUniRule annotation
Ordered Locus Names:MTH_1624
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiMethanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H) (Methanobacterium thermoautotrophicum)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri187420 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiArchaeaEuryarchaeotaMethanomada groupMethanobacteriaMethanobacterialesMethanobacteriaceaeMethanothermobacter
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000005223 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001451791 – 718DNA topoisomerase 1Add BLAST718

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Monomer.

UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections ('Function', 'PTM / Processing', 'Pathology and Biotech') according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei59Interaction with DNAUniRule annotation1
Sitei172Interaction with DNAUniRule annotation1
Sitei176Interaction with DNAUniRule annotation1
Sitei322Interaction with DNAUniRule annotation1
Sitei505Interaction with DNAUniRule annotation1

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
O27661

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini9 – 151ToprimUniRule annotationAdd BLAST143

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni202 – 207Interaction with DNAUniRule annotation6
Regioni361 – 380DisorderedSequence analysisAdd BLAST20

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>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

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_002929_5_2_2

Identification of Orthologs from Complete Genome Data

More...
OMAi
PECKYTR

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00186, TOP1Ac, 1 hit
cd03362, TOPRIM_TopoIA_TopoIII, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.290.10, 1 hit
1.10.460.10, 1 hit
2.70.20.10, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00952, Topoisom_1_prok, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View 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

The PANTHER Classification System

More...
PANTHERi
PTHR11390, PTHR11390, 2 hits

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01131, Topoisom_bac, 1 hit
PF01751, Toprim, 1 hit
PF01396, zf-C4_Topoisom, 2 hits

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00417, PRTPISMRASEI

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00437, TOP1Ac, 1 hit
SM00436, TOP1Bc, 1 hit
SM00493, TOPRIM, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF56712, SSF56712, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR01057, topA_arch, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00396, TOPOISOMERASE_I_PROK, 1 hit
PS50880, TOPRIM, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>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
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i88507CAED59C0307
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AE000666 Genomic DNA Translation: AAB86097.1

Protein sequence database of the Protein Information Resource

More...
PIRi
A69084

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAB86097; AAB86097; MTH_1624

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
mth:MTH_1624

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|187420.15.peg.1588

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

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

3D structure databases

SMRiO27661
ModBaseiSearch...

Genome annotation databases

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

Phylogenomic databases

HOGENOMiCLU_002929_5_2_2
OMAiPECKYTR

Family and domain databases

CDDicd00186, TOP1Ac, 1 hit
cd03362, TOPRIM_TopoIA_TopoIII, 1 hit
Gene3Di1.10.290.10, 1 hit
1.10.460.10, 1 hit
2.70.20.10, 1 hit
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, 2 hits
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

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiTOP1_METTH
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: O27661
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: January 1, 1998
Last modified: June 2, 2021
This is version 144 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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