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Protein

DNA topoisomerase 1

Gene

top-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Releases the supercoiling and torsional tension of DNA 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-(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). Required for normal spermatogenesis and oogenesis (PubMed:16943775).By similarity1 Publication

Catalytic activityi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei761O-(3'-phospho-DNA)-tyrosine intermediatePROSITE-ProRule annotation1

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • DNA topoisomerase type I activity Source: WormBase

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiR-CEL-4615885. SUMOylation of DNA replication proteins.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1 (EC:5.99.1.2)
Alternative name(s):
DNA topoisomerase I
Short name:
topoI
Gene namesi
Name:top-1
ORF Names:M01E5.5
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome I

Organism-specific databases

WormBaseiM01E5.5a; CE12282; WBGene00006595; top-1.
M01E5.5b; CE12284; WBGene00006595; top-1.

Subcellular locationi

GO - Cellular componenti

  • nucleolus Source: WormBase
  • nucleus Source: WormBase
  • replication fork protection complex Source: GO_Central
  • spindle pole centrosome Source: WormBase
Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus

Pathology & Biotechi

Disruption phenotypei

RNAi-mediated knockdown causes abnormal gonad morphology, enlarged sperm nuclei and aberrant progression through meiosis. Oocytes appear to have undergone endomitotic reduplication.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003304821 – 806DNA topoisomerase 1Add BLAST806

Proteomic databases

EPDiO17966.
PaxDbiO17966.
PeptideAtlasiO17966.
PRIDEiO17966.

Expressioni

Tissue specificityi

Expressed in male germ cells and in mature sperm.1 Publication

Developmental stagei

Isoform a: only expressed in embryos (PubMed:9540836). Isoform b: present at all developmental stages (PubMed:9540836). Not expressed during spermatocyte meiosis (PubMed:16943775).2 Publications

Gene expression databases

BgeeiWBGene00006595.

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei358Interaction with DNABy similarity1
Sitei406Interaction with DNABy similarity1
Sitei454Interaction with DNABy similarity1
Sitei485Interaction with DNABy similarity1
Sitei543Interaction with DNABy similarity1
Sitei581Interaction with DNABy similarity1
Sitei623Interaction with DNABy similarity1
Sitei681Interaction with DNABy similarity1
Sitei699Interaction with DNABy similarity1

Protein-protein interaction databases

STRINGi6239.M01E5.5a.

Structurei

3D structure databases

ProteinModelPortaliO17966.
SMRiO17966.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni467 – 468Interaction with DNABy similarity2
Regioni530 – 535Interaction with DNABy similarity6
Regioni634 – 636Interaction with DNABy similarity3

Sequence similaritiesi

Belongs to the type IB topoisomerase family.Curated

Phylogenomic databases

eggNOGiKOG0981. Eukaryota.
COG3569. LUCA.
GeneTreeiENSGT00390000016347.
HOGENOMiHOG000105469.
InParanoidiO17966.
KOiK03163.
OMAiHERQIAT.
OrthoDBiEOG091G02KT.
PhylomeDBiO17966.

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.
IPR018521. TopoI_AS.
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.
PROSITEiPS00176. TOPOISOMERASE_I_EUK. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform a (identifier: O17966-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSVVSNHHSN GNGNSTVYDT NGNDEIKKEV KDEPMASDSE VPFGELMKRD
60 70 80 90 100
KKEKKQKKRK AESGSDEDDY KPEKRKSSAK NGKKKDVGSD SEDDYKPEKK
110 120 130 140 150
KSKKNNKKKA QESSEDDDEE SEGDVSEEDV KPQIHSDDEL EEEDEAPTTD
160 170 180 190 200
DEEEQKRKEK ERRKKEKREK KERKEKKRLE KENRKIKEED DEDSDDEDDE
210 220 230 240 250
KAKKKKRKSK GAEKSKPSTS KKDAGGKKEP PKKKVKKEED IEDIWEWWKE
260 270 280 290 300
EKKPAGVKWN SLQHCGPLFA PPYIPLPSHV HFKYGGEKMK LTLETEEIAQ
310 320 330 340 350
FYAGVLDHEY STKEAFNKNF MKDWRKVMTV EERERIHDLK KCDFRAIDAY
360 370 380 390 400
QKEQREIRKA MTKEEKLKIK EEKEAEVKIY GIAIIDGHRQ KVANFRIEPP
410 420 430 440 450
GVFRGRGGHP KMGLIKKRIM PEDVIINCGK DTEIPKPPPG HKWKEVRHDN
460 470 480 490 500
TVTWLCSWTE SVLGQNKYIM LNPSSKIKGE KDFEKYETAR RLKKKIGGIR
510 520 530 540 550
ERYTDDFKSK EMRVRQRATA LYFIDKLALR AGNEKDVDEA ADTVGCCSLR
560 570 580 590 600
VEHIKLFDSA KLNEDDKKEK EFVVEFDFLG KDSIRYFNRV SVEKRVYKNL
610 620 630 640 650
KIFMEGKAPS DDLFDRLDTA TLNDHLRSLM DGLTVKVFRT YNASITLQEQ
660 670 680 690 700
LIKLTNPKDN VAAKILSYNR ANRQVAILCN HQRAVSKGFD ESMQKLEQKI
710 720 730 740 750
KDKKKEVKEA EAALKSARGA EKEKAQKKYD RLKEQLKKLK ISRTDKDENK
760 770 780 790 800
QIALGTSKLN YIDPRITVAW CKKFEVPLEK VFTKTHREKF RWAIDMTNSS

DEEYVF
Length:806
Mass (Da):94,030
Last modified:January 1, 1998 - v1
Checksum:i5979AD386DEBD004
GO
Isoform b (identifier: O17966-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     134-205: Missing.

Note: Predominant isoform.
Show »
Length:734
Mass (Da):85,089
Checksum:i1BE2C2FA8E492FF4
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti172E → K in CAA65537 (PubMed:8647074).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_033045134 – 205Missing in isoform b. CuratedAdd BLAST72

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X96762 mRNA. Translation: CAA65537.1.
Z93385 Genomic DNA. Translation: CAB07639.1.
Z93385 Genomic DNA. Translation: CAB07640.1.
PIRiS65469.
T23647.
T23648.
RefSeqiNP_001021578.1. NM_001026407.5. [O17966-2]
NP_493337.1. NM_060936.5. [O17966-1]
UniGeneiCel.17282.

Genome annotation databases

EnsemblMetazoaiM01E5.5a; M01E5.5a; WBGene00006595. [O17966-1]
GeneIDi266847.
KEGGicel:CELE_M01E5.5.
UCSCiM01E5.5b. c. elegans. [O17966-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X96762 mRNA. Translation: CAA65537.1.
Z93385 Genomic DNA. Translation: CAB07639.1.
Z93385 Genomic DNA. Translation: CAB07640.1.
PIRiS65469.
T23647.
T23648.
RefSeqiNP_001021578.1. NM_001026407.5. [O17966-2]
NP_493337.1. NM_060936.5. [O17966-1]
UniGeneiCel.17282.

3D structure databases

ProteinModelPortaliO17966.
SMRiO17966.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi6239.M01E5.5a.

Proteomic databases

EPDiO17966.
PaxDbiO17966.
PeptideAtlasiO17966.
PRIDEiO17966.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiM01E5.5a; M01E5.5a; WBGene00006595. [O17966-1]
GeneIDi266847.
KEGGicel:CELE_M01E5.5.
UCSCiM01E5.5b. c. elegans. [O17966-1]

Organism-specific databases

CTDi266847.
WormBaseiM01E5.5a; CE12282; WBGene00006595; top-1.
M01E5.5b; CE12284; WBGene00006595; top-1.

Phylogenomic databases

eggNOGiKOG0981. Eukaryota.
COG3569. LUCA.
GeneTreeiENSGT00390000016347.
HOGENOMiHOG000105469.
InParanoidiO17966.
KOiK03163.
OMAiHERQIAT.
OrthoDBiEOG091G02KT.
PhylomeDBiO17966.

Enzyme and pathway databases

ReactomeiR-CEL-4615885. SUMOylation of DNA replication proteins.

Miscellaneous databases

PROiO17966.

Gene expression databases

BgeeiWBGene00006595.

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.
IPR018521. TopoI_AS.
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.
PROSITEiPS00176. TOPOISOMERASE_I_EUK. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTOP1_CAEEL
AccessioniPrimary (citable) accession number: O17966
Secondary accession number(s): O17965, Q27529
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: January 1, 1998
Last modified: November 30, 2016
This is version 120 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Miscellaneous

Eukaryotic topoisomerase I and II can relax both negative and positive supercoils, whereas prokaryotic enzymes relax only negative supercoils.By similarity

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  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.