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P13099 (TOP3_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 135. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA topoisomerase 3

EC=5.99.1.2
Alternative name(s):
DNA topoisomerase III
Gene names
Name:TOP3
Synonyms:EDR1
Ordered Locus Names:YLR234W
ORF Names:L8083.3
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length656 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand than undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone By similarity. Essential for proper chromosome segregation in both meiosis and mitosis. Weakly relaxes negative supercoils and displays a distinct preference for binding single-stranded DNA. The TOP3-SGS1 protein complex may function as a eukaryotic reverse gyrase introducing positive supercoils into extrachromosomal ribosomal DNA rings. Ref.1

Catalytic activity

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

Subunit structure

Forms a complex with SGS1 and RMI1. Interacts with SGS1. Ref.6 Ref.7

Miscellaneous

Present with 468 molecules/cell in log phase SD medium.

Sequence similarities

Belongs to the type IA topoisomerase family.

Contains 1 Toprim domain.

Binary interactions

With

Entry

#Exp.

IntAct

Notes

SGS1P351873EBI-19365,EBI-17059

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 656656DNA topoisomerase 3
PRO_0000145198

Regions

Domain2 – 156155Toprim

Sites

Active site3561O-(5'-phospho-DNA)-tyrosine intermediate By similarity

Sequences

Sequence LengthMass (Da)Tools
P13099 [UniParc].

Last modified January 1, 1990. Version 1.
Checksum: 51DF78936A88B4F4

FASTA65674,371
        10         20         30         40         50         60 
MKVLCVAEKN SIAKAVSQIL GGGRSTSRDS GYMYVKNYDF MFSGFPFARN GANCEVTMTS 

        70         80         90        100        110        120 
VAGHLTGIDF SHDSHGWGKC AIQELFDAPL NEIMNNNQKK IASNIKREAR NADYLMIWTD 

       130        140        150        160        170        180 
CDREGEYIGW EIWQEAKRGN RLIQNDQVYR AVFSHLERQH ILNAARNPSR LDMKSVHAVG 

       190        200        210        220        230        240 
TRIEIDLRAG VTFTRLLTET LRNKLRNQAT MTKDGAKHRG GNKNDSQVVS YGTCQFPTLG 

       250        260        270        280        290        300 
FVVDRFERIR NFVPEEFWYI QLVVENKDNG GTTTFQWDRG HLFDRLSVLT FYETCIETAG 

       310        320        330        340        350        360 
NVAQVVDLKS KPTTKYRPLP LTTVELQKNC ARYLRLNAKQ SLDAAEKLYQ KGFISYPRTE 

       370        380        390        400        410        420 
TDTFPHAMDL KSLVEKQAQL DQLAAGGRTA WASYAASLLQ PENTSNNNKF KFPRSGSHDD 

       430        440        450        460        470        480 
KAHPPIHPIV SLGPEANVSP VERRVYEYVA RHFLACCSED AKGQSMTLVL DWAVERFSAS 

       490        500        510        520        530        540 
GLVVLERNFL DVYPWARWET TKQLPRLEMN ALVDIAKAEM KAGTTAPPKP MTESELILLM 

       550        560        570        580        590        600 
DTNGIGTDAT IAEHIDKIQV RNYVRSEKVG KETYLQPTTL GVSLVHGFEA IGLEDSFAKP 

       610        620        630        640        650 
FQRREMEQDL KKICEGHASK TDVVKDIVEK YRKYWHKTNA CKNTLLQVYD RVKASM 

« Hide

References

« Hide 'large scale' references
[1]"A hyper-recombination mutation in S. cerevisiae identifies a novel eukaryotic topoisomerase."
Wallis J.W., Chrebet G., Brodsky G., Rolfe M., Rothstein R.
Cell 58:409-419(1989) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
[2]"The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."
Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H. expand/collapse author list , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
Nature 387:87-90(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[3]"The reference genome sequence of Saccharomyces cerevisiae: Then and now."
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.
G3 (Bethesda) 4:389-398(2014) [PubMed] [Europe PMC] [Abstract]
Cited for: GENOME REANNOTATION.
Strain: ATCC 204508 / S288c.
[4]"An essential yeast protein, CBF5p, binds in vitro to centromeres and microtubules."
Jiang W., Middleton K., Yoon H.-J., Fouquet C., Carbon J.
Mol. Cell. Biol. 13:4884-4893(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEIN SEQUENCE OF 578-592; 605-615; 794-805 AND 1038-1046.
[5]"Global analysis of protein expression in yeast."
Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S.
Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[6]"RMI1/NCE4, a suppressor of genome instability, encodes a member of the RecQ helicase/Topo III complex."
Chang M., Bellaoui M., Zhang C., Desai R., Morozov P., Delgado-Cruzata L., Rothstein R., Freyer G.A., Boone C., Brown G.W.
EMBO J. 24:2024-2033(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBUNIT.
[7]"Yeast Rmi1/Nce4 controls genome stability as a subunit of the Sgs1-Top3 complex."
Mullen J.R., Nallaseth F.S., Lan Y.Q., Slagle C.E., Brill S.J.
Mol. Cell. Biol. 25:4476-4487(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBUNIT.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
M24939 Genomic DNA. Translation: AAA35161.1.
U19027 Genomic DNA. Translation: AAB67406.1.
BK006945 Genomic DNA. Translation: DAA09550.1.
PIRISBYT3. A33169.
RefSeqNP_013335.1. NM_001182121.1.

3D structure databases

ProteinModelPortalP13099.
SMRP13099. Positions 2-633.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid31503. 106 interactions.
DIPDIP-2912N.
IntActP13099. 3 interactions.
MINTMINT-442624.
STRING4932.YLR234W.

Proteomic databases

MaxQBP13099.
PaxDbP13099.
PeptideAtlasP13099.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYLR234W; YLR234W; YLR234W.
GeneID850935.
KEGGsce:YLR234W.

Organism-specific databases

CYGDYLR234w.
SGDS000004224. TOP3.

Phylogenomic databases

eggNOGCOG0550.
GeneTreeENSGT00530000063430.
HOGENOMHOG000184377.
KOK03165.
OMAARFSNTE.
OrthoDBEOG7Q8CWW.

Enzyme and pathway databases

BioCycYEAST:G3O-32345-MONOMER.

Gene expression databases

GenevestigatorP13099.

Family and domain databases

Gene3D1.10.290.10. 1 hit.
1.10.460.10. 2 hits.
3.40.50.140. 1 hit.
InterProIPR000380. Topo_IA.
IPR003601. Topo_IA_2.
IPR023406. Topo_IA_AS.
IPR013497. Topo_IA_cen.
IPR013824. Topo_IA_cen_sub1.
IPR013826. Topo_IA_cen_sub3.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERPTHR11390. PTHR11390. 1 hit.
PfamPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view]
PRINTSPR00417. PRTPISMRASEI.
SMARTSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMSSF56712. SSF56712. 1 hit.
PROSITEPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio967378.
PROP13099.

Entry information

Entry nameTOP3_YEAST
AccessionPrimary (citable) accession number: P13099
Secondary accession number(s): D6VYN4
Entry history
Integrated into UniProtKB/Swiss-Prot: January 1, 1990
Last sequence update: January 1, 1990
Last modified: July 9, 2014
This is version 135 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome XII

Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

SIMILARITY comments

Index of protein domains and families