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O17966

- TOP1_CAEEL

UniProt

O17966 - TOP1_CAEEL

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Protein

DNA topoisomerase 1

Gene

top-1

Organism
Caenorhabditis elegans
Status
Reviewed - Annotation score: 4 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 undergoes passage around the unbroken 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.PROSITE-ProRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei358 – 3581Interaction with DNABy similarity
Sitei406 – 4061Interaction with DNABy similarity
Sitei454 – 4541Interaction with DNABy similarity
Sitei485 – 4851Interaction with DNABy similarity
Sitei543 – 5431Interaction with DNABy similarity
Sitei581 – 5811Interaction with DNABy similarity
Sitei623 – 6231Interaction with DNABy similarity
Sitei681 – 6811Interaction with DNABy similarity
Sitei699 – 6991Interaction with DNABy similarity
Active sitei761 – 7611O-(3'-phospho-DNA)-tyrosine intermediatePROSITE-ProRule annotation

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. DNA topoisomerase type I activity Source: WormBase
  3. DNA topoisomerase type II (ATP-hydrolyzing) activity Source: InterPro

GO - Biological processi

  1. chromatin remodeling Source: RefGenome
  2. DNA replication Source: RefGenome
  3. DNA topological change Source: RefGenome
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding

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
ProteomesiUP000001940: Chromosome I

Organism-specific databases

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

Subcellular locationi

Nucleus By similarity

GO - Cellular componenti

  1. nucleolus Source: WormBase
  2. nucleus Source: WormBase
  3. replication fork protection complex Source: RefGenome
  4. spindle pole centrosome Source: WormBase
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 806806DNA topoisomerase 1PRO_0000330482Add
BLAST

Proteomic databases

PaxDbiO17966.
PRIDEiO17966.

Expressioni

Developmental stagei

Isoform a is only expressed in embryos. Isoform b is present at all developmental stages.1 Publication

Interactioni

Protein-protein interaction databases

STRINGi6239.M01E5.5a.

Structurei

3D structure databases

ProteinModelPortaliO17966.
SMRiO17966. Positions 245-806.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni467 – 4682Interaction with DNABy similarity
Regioni530 – 5356Interaction with DNABy similarity
Regioni634 – 6363Interaction with DNABy similarity

Sequence similaritiesi

Belongs to the type IB topoisomerase family.Curated

Phylogenomic databases

eggNOGiCOG3569.
GeneTreeiENSGT00390000016347.
HOGENOMiHOG000105469.
InParanoidiO17966.
KOiK03163.
OMAiREKFNWA.
OrthoDBiEOG7CVPX5.
PhylomeDBiO17966.

Family and domain databases

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. Align

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)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti172 – 1721E → K in CAA65537. (PubMed:8647074)Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei134 – 20572Missing in isoform b. CuratedVSP_033045Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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:
EMBL
GenBank
DDBJ
Links Updated
X96762 mRNA. Translation: CAA65537.1 .
Z93385 Genomic DNA. Translation: CAB07639.1 .
Z93385 Genomic DNA. Translation: CAB07640.1 .
PIRi S65469.
T23647.
T23648.
RefSeqi NP_001021578.1. NM_001026407.5. [O17966-2 ]
NP_493337.1. NM_060936.5. [O17966-1 ]
UniGenei Cel.17282.

3D structure databases

ProteinModelPortali O17966.
SMRi O17966. Positions 245-806.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 6239.M01E5.5a.

Proteomic databases

PaxDbi O17966.
PRIDEi O17966.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblMetazoai M01E5.5a ; M01E5.5a ; WBGene00006595 . [O17966-1 ]
GeneIDi 266847.
KEGGi cel:CELE_M01E5.5.
UCSCi M01E5.5b. c. elegans. [O17966-1 ]

Organism-specific databases

CTDi 266847.
WormBasei M01E5.5a ; CE12282 ; WBGene00006595 ; top-1.
M01E5.5b ; CE12284 ; WBGene00006595 ; top-1.

Phylogenomic databases

eggNOGi COG3569.
GeneTreei ENSGT00390000016347.
HOGENOMi HOG000105469.
InParanoidi O17966.
KOi K03163.
OMAi REKFNWA.
OrthoDBi EOG7CVPX5.
PhylomeDBi O17966.

Miscellaneous databases

NextBioi 953260.

Family and domain databases

Gene3Di 1.10.10.41. 1 hit.
1.10.132.10. 1 hit.
2.170.11.10. 2 hits.
3.90.15.10. 1 hit.
InterProi IPR011010. 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 ]
Pfami PF14370. Topo_C_assoc. 1 hit.
PF01028. Topoisom_I. 1 hit.
PF02919. Topoisom_I_N. 1 hit.
[Graphical view ]
PRINTSi PR00416. EUTPISMRASEI.
SMARTi SM00435. TOPEUc. 1 hit.
[Graphical view ]
SUPFAMi SSF56349. SSF56349. 2 hits.
SSF56741. SSF56741. 1 hit.
PROSITEi PS00176. TOPOISOMERASE_I_EUK. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "cDNA cloning, expression, and chromosomal localization of Caenorhabditis elegans DNA topoisomerase I."
    Kim J., Kim Y.-C., Lee J.H., Jang Y.J., Chung I.K., Koo H.-S.
    Eur. J. Biochem. 237:367-372(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM A).
    Strain: Bristol N2.
  2. "Alternative splicing in the Caenorhabditis elegans DNA topoisomerase I gene."
    Lee M.H., Jang Y.J., Koo H.-S.
    Biochim. Biophys. Acta 1396:207-214(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: SEQUENCE REVISION, ALTERNATIVE SPLICING, DEVELOPMENTAL STAGE.
    Strain: Bristol N2.
  3. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Bristol N2.

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: October 1, 2014
This is version 103 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

External Data

Dasty 3