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Protein

DNA topoisomerase 1

Gene

top-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: -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

Miscellaneous

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

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

Keywordsi

Molecular functionDNA-binding, Isomerase, Topoisomerase

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

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

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
OMAiATWLAMW
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
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
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
IPR036202 TopoI_DNA-bd_euk_N_sf
IPR013499 TopoI_euk
PANTHERiPTHR10290 PTHR10290, 1 hit
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, 2 hits
SSF56741 SSF56741, 1 hit
PROSITEiView protein in PROSITE
PS00176 TOPOISOMERASE_I_EUK, 1 hit

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.1; M01E5.5a.1; WBGene00006595 [O17966-1]
M01E5.5a.2; M01E5.5a.2; WBGene00006595 [O17966-1]
GeneIDi266847
KEGGicel:CELE_M01E5.5
UCSCiM01E5.5b c. elegans [O17966-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiTOP1_CAEEL
AccessioniPrimary (citable) accession number: O17966
Secondary accession number(s): O17965, Q27529
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: January 1, 1998
Last modified: March 28, 2018
This is version 129 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health