P40028 (YEN1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Holliday junction resolvase YEN1
EC=3.1.-.-

Gene names

Name:	YEN1
Ordered Locus Names:	YER041W

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Fungi › Dikarya › Ascomycota › saccharomyceta › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › Saccharomyces cerevisiae

Protein attributes

Sequence length	759 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Endonuclease which resolves Holliday junctions by the introduction of symmetrically related cuts across the junction point, to produce nicked duplex products in which the nicks can be readily ligated. Four-way DNA intermediates, also known as Holliday junctions, are formed during homologous recombination and DNA repair, and their resolution is necessary for proper chromosome segregation. Involved in DNA-damage repair in vegetative cells. Ref.6 Ref.8 Ref.9
Subcellular location	Cytoplasm. Nucleus. Note: Predominantly nuclear in G1-arrested cells, but cytoplasmically localized after release from G1 arrest. Ref.7
Miscellaneous	Present with 131 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the XPG/RAD2 endonuclease family. GEN subfamily.
Sequence caution	The sequence AAA60376.1 differs from that shown. Reason: Frameshift at positions 63, 673 and 759.

Ontologies

Keywords
Biological process	DNA damage DNA repair
Cellular component	Cytoplasm Nucleus
Molecular function	Endonuclease Hydrolase Nuclease
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA repair Inferred from genetic interaction Ref.8. Source: SGD
Cellular_component	cytoplasm Inferred from direct assay Ref.7. Source: SGD nucleus Inferred from direct assay Ref.7. Source: SGD
Molecular_function	DNA binding Inferred from electronic annotation. Source: InterPro crossover junction endodeoxyribonuclease activity Inferred from direct assay Ref.6. Source: SGD single-stranded DNA specific endodeoxyribonuclease activity Inferred from sequence or structural similarity PubMed 9683672. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 759	759	Holliday junction resolvase YEN1		PRO_0000202629
Amino acid modifications
	Modified residue	243	1	Phosphoserine Ref.5
	Modified residue	245	1	Phosphoserine Ref.5
Experimental info
	Sequence conflict	59	1	A → P in AAB64576. Ref.2
	Sequence conflict	164 – 165	2	LL → FV in AAA60376. Ref.1
	Sequence conflict	346	1	Y → C in AAA60376. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	P40028 [UniParc]. Last modified July 27, 2011. Version 2. Checksum: CE1305A9F78CA300	FASTA	759	87,364
	10 20 30 40 50 60 MGVSQIWEFL KPYLQDSRIP LRKFVIDFNK SQKRAPRIAI DAYGWLFECG FIQNIDISAR 70 80 90 100 110 120 SRSRSRSPTR SPRDSDIDSS QEYYGSRSYT TTGKAVINFI SRLKELLSLN VEFLLVFDGV 130 140 150 160 170 180 MKPSFKRKFN HEQNATTCDD EKEYYSSWEQ HVKNHEVYGN CKGLLAPSDP EFISLVRKLL 190 200 210 220 230 240 DLMNISYVIA CGEGEAQCVW LQVSGAVDFI LSNDSDTLVF GGEKILKNYS KFYDDFGPSS 250 260 270 280 290 300 ITSHSPSRHH DSKESFVTVI DLPKINKVAG KKFDRLSLLF FSVLLGADYN RGVKGLGKNK 310 320 330 340 350 360 SLQLAQCEDP NFSMEFYDIF KDFNLEDLTS ESLRKSRYRL FQKRLYLYCK DHSVELFGRN 370 380 390 400 410 420 YPVLLNQGSF EGWPSTVAIM HYFHPIVQPY FDEEVLSDKY INMAGNGHYR NLNFNELKYF 430 440 450 460 470 480 LQSLNLPQIS SFDKWFHDSM HEMFLLREFL SIDESDNIGK GNMRITEEKI MNIDGGKFQI 490 500 510 520 530 540 PCFKIRYTTF LPNIPISSQS PLKRSNSPSR SKSPTRRQMD IMEHPNSLWL PKYLIPQSHP 550 560 570 580 590 600 LVIQYYETQQ LIQKEKEKKG KKSNKSRLPQ KNNLDEFLRK HTSPIKSIGK VGESRKEILE 610 620 630 640 650 660 PVRKRLFVDT DEDTSLEEIP APTRLTTVDE HSDNDDDSLI FVDEITNSQS VLDSSPGKRI 670 680 690 700 710 720 RDLTQDEQVD VWKDVIEISP IKKSRTTNAE KNPPESGLKS RSSITINARL QGTKMLPPNL 730 740 750 TAPRLEREHS SVLDQLVTDA QDTVDRFVAC DSDSSSTIE

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Sequence of an open reading frame 3' to the GLN3 gene." El-Berry H.M., Cooper T.G. Submitted (AUG-1994) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: Sigma 1278B.
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome V." Dietrich F.S., Mulligan J.T., Hennessy K.M., Yelton M.A., Allen E., Araujo R., Aviles E., Berno A., Brennan T., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Guzman E., Hartzell G., Hunicke-Smith S., Hyman R.W. , Kayser A., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Norgren R., Oefner P., Oh C., Petel F.X., Roberts D., Sehl P., Schramm S., Shogren T., Smith V., Taylor P., Wei Y., Botstein D., Davis R.W. Nature 387:78-81(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	Saccharomyces Genome Database Submitted (MAR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION, SEQUENCE REVISION TO 59. Strain: ATCC 204508 / S288c.
[4]	"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].
[5]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-243 AND SER-245, MASS SPECTROMETRY.
[6]	"Identification of Holliday junction resolvases from humans and yeast." Ip S.C., Rass U., Blanco M.G., Flynn H.R., Skehel J.M., West S.C. Nature 456:357-361(2008) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[7]	"Systematic identification of cell cycle-dependent yeast nucleocytoplasmic shuttling proteins by prediction of composite motifs." Kosugi S., Hasebe M., Tomita M., Yanagawa H. Proc. Natl. Acad. Sci. U.S.A. 106:10171-10176(2009) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION.
[8]	"Functional overlap between the structure-specific nucleases Yen1 and Mus81-Mms4 for DNA-damage repair in S. cerevisiae." Blanco M.G., Matos J., Rass U., Ip S.C., West S.C. DNA Repair 9:394-402(2010) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[9]	"Mus81 and Yen1 promote reciprocal exchange during mitotic recombination to maintain genome integrity in budding yeast." Ho C.K., Mazon G., Lam A.F., Symington L.S. Mol. Cell 40:988-1000(2010) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U13615 Genomic DNA. Translation: AAA60376.1. Frameshift. U18796 Genomic DNA. Translation: AAB64576.1. BK006939 Genomic DNA. Translation: DAA07695.2.
PIR	S50544.
RefSeq	NP_010959.2. NM_001178932.2.
3D structure databases
ProteinModelPortal	P40028.
SMR	P40028. Positions 102-310.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-6450N.
IntAct	P40028. 4 interactions.
MINT	MINT-680602.
STRING	4932.YER041W.
Proteomic databases
PaxDb	P40028.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YER041W; YER041W; YER041W.
GeneID	856764.
KEGG	sce:YER041W.
Organism-specific databases
CYGD	YER041w.
SGD	S000000843. YEN1.
Phylogenomic databases
eggNOG	COG0258.
HOGENOM	HOG000142381.
KO	K15339.
OMA	WLFECGF.
OrthoDB	EOG4MWCG5.
Gene expression databases
Genevestigator	P40028.
GermOnline	YER041W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR020045. 5-3_exonuclease_C. IPR006086. XPG-I_dom. IPR006084. XPG/Rad2. IPR006085. XPG_DNA_repair_N. [Graphical view]
PANTHER	PTHR11081. PTHR11081. 1 hit.
Pfam	PF00867. XPG_I. 1 hit. [Graphical view]
PRINTS	PR00853. XPGRADSUPER.
SMART	SM00484. XPGI. 1 hit. SM00485. XPGN. 1 hit. [Graphical view]
SUPFAM	SSF47807. 5_3_exo_C. 1 hit.
ProtoNet	Search...
Other
NextBio	982941.

Entry information

Entry name

YEN1_YEAST

Accession

Primary (citable) accession number: P40028
Secondary accession number(s): D3DLU1, Q02463

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	July 27, 2011
Last modified:	May 1, 2013
This is version 99 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program