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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-Experimental evidence at transcript leveli

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

Catalytic activityi

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.

Cofactori

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

Sites

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

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase I, mitochondrial (EC:5.99.1.2)
Short name:
TOP1mt
Gene namesi
Name:Top1mt
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 7

Organism-specific databases

RGDi1303177. Top1mt.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 43MitochondrionBy similarityAdd BLAST43
ChainiPRO_000038439544 – 593DNA topoisomerase I, mitochondrialAdd BLAST550

Proteomic databases

PaxDbiQ6IM78.
PRIDEiQ6IM78.

Expressioni

Gene expression databases

BgeeiENSRNOG00000007500.
ExpressionAtlasiQ6IM78. baseline and differential.
GenevisibleiQ6IM78. RN.

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
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

STRINGi10116.ENSRNOP00000009965.

Structurei

3D structure databases

ProteinModelPortaliQ6IM78.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni254 – 255Interaction with DNABy similarity2
Regioni317 – 322Interaction with DNABy similarity6
Regioni414 – 416Interaction with DNABy similarity3

Sequence similaritiesi

Belongs to the type IB topoisomerase family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG0981. Eukaryota.
COG3569. LUCA.
GeneTreeiENSGT00390000016347.
HOGENOMiHOG000105469.
InParanoidiQ6IM78.
KOiK03163.
OMAiVINCSRD.
OrthoDBiEOG091G02KT.
PhylomeDBiQ6IM78.
TreeFamiTF105281.

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. 2 hits.
3.90.15.10. 1 hit.
InterProiIPR011010. DNA_brk_join_enz.
IPR013034. DNA_topo_domain1.
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.
IPR013030. TopoI_DNA-bd_mixed-a/b_euk.
IPR013499. TopoI_euk.
[Graphical view]
PfamiPF14370. Topo_C_assoc. 1 hit.
PF01028. Topoisom_I. 1 hit.
PF02919. Topoisom_I_N. 1 hit.
[Graphical view]
PRINTSiPR00416. EUTPISMRASEI.
SMARTiSM00435. TOPEUc. 1 hit.
[Graphical view]
SUPFAMiSSF56349. SSF56349. 2 hits.
SSF56741. SSF56741. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

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
Checksum:i6B691D668970BD9E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BK001786 mRNA. Translation: DAA02296.1.
RefSeqiNP_001002798.1. NM_001002798.1.
UniGeneiRn.31307.

Genome annotation databases

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

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BK001786 mRNA. Translation: DAA02296.1.
RefSeqiNP_001002798.1. NM_001002798.1.
UniGeneiRn.31307.

3D structure databases

ProteinModelPortaliQ6IM78.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000009965.

Proteomic databases

PaxDbiQ6IM78.
PRIDEiQ6IM78.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

CTDi116447.
RGDi1303177. Top1mt.

Phylogenomic databases

eggNOGiKOG0981. Eukaryota.
COG3569. LUCA.
GeneTreeiENSGT00390000016347.
HOGENOMiHOG000105469.
InParanoidiQ6IM78.
KOiK03163.
OMAiVINCSRD.
OrthoDBiEOG091G02KT.
PhylomeDBiQ6IM78.
TreeFamiTF105281.

Miscellaneous databases

PROiQ6IM78.

Gene expression databases

BgeeiENSRNOG00000007500.
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. 2 hits.
3.90.15.10. 1 hit.
InterProiIPR011010. DNA_brk_join_enz.
IPR013034. DNA_topo_domain1.
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.
IPR013030. TopoI_DNA-bd_mixed-a/b_euk.
IPR013499. TopoI_euk.
[Graphical view]
PfamiPF14370. Topo_C_assoc. 1 hit.
PF01028. Topoisom_I. 1 hit.
PF02919. Topoisom_I_N. 1 hit.
[Graphical view]
PRINTSiPR00416. EUTPISMRASEI.
SMARTiSM00435. TOPEUc. 1 hit.
[Graphical view]
SUPFAMiSSF56349. SSF56349. 2 hits.
SSF56741. SSF56741. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiTOP1M_RAT
AccessioniPrimary (citable) accession number: Q6IM78
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: July 5, 2004
Last modified: November 30, 2016
This is version 95 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata 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.