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Entry version 117 (12 Aug 2020)
Sequence version 1 (05 Jul 2004)
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Protein

DNA topoisomerase I, mitochondrial

Gene

Top1mt

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score:

Annotation score:3 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>
-Experimental evidence at transcript leveli <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 introduced during duplication of mitochondrial DNA 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-(3'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 5'-OH DNA strand. The free DNA strand then rotates around the intact phosphodiester bond on the opposing strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 5'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone (By similarity).By similarity

<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. 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

Ca2+By similarity, Mg2+By similarityNote: Divalent metal ions (calcium or magnesium).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<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 sitei551O-(3'-phospho-DNA)-tyrosine intermediateBy similarity1

<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

<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 I, mitochondrial (EC:5.6.2.1)
Short name:
TOP1mt
<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:Top1mt
<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>OrganismiRattus norvegicus (Rat)
<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 identifieri10116 [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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
<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
  • UP000002494 <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 7

Organism-specific databases

Rat genome database

More...
RGDi
1303177, Top1mt

<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

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Mitochondrion

<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 transit peptide.<p><a href='/help/transit' target='_top'>More...</a></p>Transit peptidei1 – 43MitochondrionBy similarityAdd BLAST43
<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_000038439544 – 593DNA topoisomerase I, mitochondrialAdd BLAST550

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q6IM78

PRoteomics IDEntifications database

More...
PRIDEi
Q6IM78

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSRNOG00000007500, Expressed in testis and 21 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q6IM78, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q6IM78, RN

<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

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>Sitei145Interaction with DNABy similarity1
Sitei193Interaction with DNABy similarity1
Sitei241Interaction with DNABy similarity1
Sitei272Interaction with DNABy similarity1
Sitei330Interaction with DNABy similarity1
Sitei361Interaction with DNABy similarity1
Sitei403Interaction with DNABy similarity1
Sitei461Interaction with DNABy similarity1
Sitei479Interaction with DNABy similarity1

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
10116.ENSRNOP00000009965

<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
Q6IM78

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

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>Regioni254 – 255Interaction with DNABy similarity2
Regioni317 – 322Interaction with DNABy similarity6
Regioni414 – 416Interaction with DNABy similarity3

<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 IB topoisomerase family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG0981, Eukaryota

Ensembl GeneTree

More...
GeneTreei
ENSGT00940000162943

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q6IM78

KEGG Orthology (KO)

More...
KOi
K03163

Identification of Orthologs from Complete Genome Data

More...
OMAi
DHTVTWL

Database of Orthologous Groups

More...
OrthoDBi
303947at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q6IM78

TreeFam database of animal gene trees

More...
TreeFami
TF105281

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00659, Topo_IB_C, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.10.41, 1 hit
1.10.132.10, 1 hit
2.170.11.10, 1 hit
3.90.15.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR011010, DNA_brk_join_enz
IPR013034, DNA_topo_DNA_db_N_dom1
IPR013030, DNA_topo_DNA_db_N_dom2
IPR001631, TopoI
IPR025834, TopoI_C_dom
IPR014711, TopoI_cat_a-hlx-sub_euk
IPR014727, TopoI_cat_a/b-sub_euk
IPR013500, TopoI_cat_euk
IPR008336, TopoI_DNA-bd_euk
IPR036202, TopoI_DNA-bd_euk_N_sf
IPR013499, TopoI_euk

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF14370, Topo_C_assoc, 1 hit
PF01028, Topoisom_I, 1 hit
PF02919, Topoisom_I_N, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00416, EUTPISMRASEI

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00435, TOPEUc, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF56349, SSF56349, 1 hit
SSF56741, SSF56741, 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>Sequence (1+)i

<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.

<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 in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

Q6IM78-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MLLLWLRALC RRFQHVPRRV PSRQVSRGSK ASRAGWGETS KSSVKWKQLE
60 70 80 90 100
HKGPCFAPAY EPLPDGVRFF YDGKPVRLSL AAEEVATFYG KMLHLECTTK
110 120 130 140 150
EVFRRNFFSD WQKEMTAEER KLITHLDKCD FSEIHRHFME RAEARRTLPR
160 170 180 190 200
EQKQKLKEEA EKLQQEFGYC ILDGHREKIG NFKTEPPGLF RGRGDHPKMG
210 220 230 240 250
MLKRRVMPED VVINCSRDSK IPEPPAGHQW KEVRSDNTVM WLAAWVENIQ
260 270 280 290 300
NSFKYIILNP SSKPKGEMDW QKYEVARRLK GVVDKIRAQY QADWKSPEMK
310 320 330 340 350
KRQLAVALYF IDKLALRTGN EKEEGETADT VGCCSLRVEH VRLHTPADGQ
360 370 380 390 400
EHVVELDFLG KDSIRYKNHV TVEKLVFQNL QHFMEDKDPR DDLFDALTTS
410 420 430 440 450
SLNKHLQDLM EGLTAKVFRT YNASITLQEQ LRVLTRAEDS LTCKVLAYNR
460 470 480 490 500
ANRAVAVLCN HQRAIPKTFE ESMQTLQKKI ETKKAQVAEA QVELQKAETD
510 520 530 540 550
LRMRGDSKSK SFLQKQQRLL KLEEQLARLC TKATDKEENK QVALGTAKLN
560 570 580 590
YLDPRISIAW CKRFGVPVEK IYNKTQRERF AWAFNQAGED FEF
Length:593
Mass (Da):69,011
Last modified:July 5, 2004 - 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:i6B691D668970BD9E
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A0G2JWV0A0A0G2JWV0_RAT
DNA topoisomerase I
Top1mt
570Annotation score:

Annotation score:2 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>

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
BK001786 mRNA Translation: DAA02296.1

NCBI Reference Sequences

More...
RefSeqi
NP_001002798.1, NM_001002798.1

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSRNOT00000009965; ENSRNOP00000009965; ENSRNOG00000007500

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
300029

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
rno:300029

UCSC genome browser

More...
UCSCi
RGD:1303177, rat

<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
BK001786 mRNA Translation: DAA02296.1
RefSeqiNP_001002798.1, NM_001002798.1

3D structure databases

SMRiQ6IM78
ModBaseiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000009965

Proteomic databases

PaxDbiQ6IM78
PRIDEiQ6IM78

Genome annotation databases

EnsembliENSRNOT00000009965; ENSRNOP00000009965; ENSRNOG00000007500
GeneIDi300029
KEGGirno:300029
UCSCiRGD:1303177, rat

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
116447
RGDi1303177, Top1mt

Phylogenomic databases

eggNOGiKOG0981, Eukaryota
GeneTreeiENSGT00940000162943
InParanoidiQ6IM78
KOiK03163
OMAiDHTVTWL
OrthoDBi303947at2759
PhylomeDBiQ6IM78
TreeFamiTF105281

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q6IM78

Gene expression databases

BgeeiENSRNOG00000007500, Expressed in testis and 21 other tissues
ExpressionAtlasiQ6IM78, baseline and differential
GenevisibleiQ6IM78, RN

Family and domain databases

CDDicd00659, Topo_IB_C, 1 hit
Gene3Di1.10.10.41, 1 hit
1.10.132.10, 1 hit
2.170.11.10, 1 hit
3.90.15.10, 1 hit
InterProiView protein in InterPro
IPR011010, DNA_brk_join_enz
IPR013034, DNA_topo_DNA_db_N_dom1
IPR013030, DNA_topo_DNA_db_N_dom2
IPR001631, TopoI
IPR025834, TopoI_C_dom
IPR014711, TopoI_cat_a-hlx-sub_euk
IPR014727, TopoI_cat_a/b-sub_euk
IPR013500, TopoI_cat_euk
IPR008336, TopoI_DNA-bd_euk
IPR036202, TopoI_DNA-bd_euk_N_sf
IPR013499, TopoI_euk
PfamiView protein in Pfam
PF14370, Topo_C_assoc, 1 hit
PF01028, Topoisom_I, 1 hit
PF02919, Topoisom_I_N, 1 hit
PRINTSiPR00416, EUTPISMRASEI
SMARTiView protein in SMART
SM00435, TOPEUc, 1 hit
SUPFAMiSSF56349, SSF56349, 1 hit
SSF56741, SSF56741, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

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 nameiTOP1M_RAT
<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: Q6IM78
<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: September 22, 2009
Last sequence update: July 5, 2004
Last modified: August 12, 2020
This is version 117 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 programChordata 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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