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O17966

- TOP1_CAEEL

UniProt

O17966 - TOP1_CAEEL

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Protein

DNA topoisomerase 1

Gene
top-1, M01E5.5
Organism
Caenorhabditis elegans
Status
Reviewed - 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 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.

Catalytic activityi

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

Sites

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

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. DNA binding Source: UniProtKB-KW
  3. DNA topoisomerase type I activity Source: WormBase
  4. 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.

Family & Domainsi

Region

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

Sequence similaritiesi

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

MSVVSNHHSN GNGNSTVYDT NGNDEIKKEV KDEPMASDSE VPFGELMKRD    50
KKEKKQKKRK AESGSDEDDY KPEKRKSSAK NGKKKDVGSD SEDDYKPEKK 100
KSKKNNKKKA QESSEDDDEE SEGDVSEEDV KPQIHSDDEL EEEDEAPTTD 150
DEEEQKRKEK ERRKKEKREK KERKEKKRLE KENRKIKEED DEDSDDEDDE 200
KAKKKKRKSK GAEKSKPSTS KKDAGGKKEP PKKKVKKEED IEDIWEWWKE 250
EKKPAGVKWN SLQHCGPLFA PPYIPLPSHV HFKYGGEKMK LTLETEEIAQ 300
FYAGVLDHEY STKEAFNKNF MKDWRKVMTV EERERIHDLK KCDFRAIDAY 350
QKEQREIRKA MTKEEKLKIK EEKEAEVKIY GIAIIDGHRQ KVANFRIEPP 400
GVFRGRGGHP KMGLIKKRIM PEDVIINCGK DTEIPKPPPG HKWKEVRHDN 450
TVTWLCSWTE SVLGQNKYIM LNPSSKIKGE KDFEKYETAR RLKKKIGGIR 500
ERYTDDFKSK EMRVRQRATA LYFIDKLALR AGNEKDVDEA ADTVGCCSLR 550
VEHIKLFDSA KLNEDDKKEK EFVVEFDFLG KDSIRYFNRV SVEKRVYKNL 600
KIFMEGKAPS DDLFDRLDTA TLNDHLRSLM DGLTVKVFRT YNASITLQEQ 650
LIKLTNPKDN VAAKILSYNR ANRQVAILCN HQRAVSKGFD ESMQKLEQKI 700
KDKKKEVKEA EAALKSARGA EKEKAQKKYD RLKEQLKKLK ISRTDKDENK 750
QIALGTSKLN YIDPRITVAW CKKFEVPLEK VFTKTHREKF RWAIDMTNSS 800
DEEYVF 806
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

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei134 – 20572Missing in isoform b. VSP_033045Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti172 – 1721E → K in CAA65537. 1 Publication

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: July 9, 2014
This is version 102 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

Similar proteinsi