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Entry version 162 (29 Sep 2021)
Sequence version 2 (27 Jul 2011)
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Protein

Holliday junction resolvase YEN1

Gene

YEN1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

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.

3 Publications

Miscellaneous

Present with 131 molecules/cell in log phase SD medium.1 Publication

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionEndonuclease, Hydrolase, Nuclease
Biological processDNA damage, DNA repair

Enzyme and pathway databases

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
3.1.22.4, 984

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Holliday junction resolvase YEN1 (EC:3.1.-.-)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:YEN1
Ordered Locus Names:YER041W
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri559292 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002311 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome V

Organism-specific databases

Saccharomyces Genome Database

More...
SGDi
S000000843, YEN1

Eukaryotic Pathogen, Vector and Host Database Resources

More...
VEuPathDBi
FungiDB:YER041W

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

Cytoplasm, Nucleus

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology_and_biotech_section">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi41D → N: Mutants do not survive after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi97I → E: Mutants show a slight growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi298K → E: Mutants show a very strong growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi469K → E: Mutants show a growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi478F → A: Mutants show a growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi484K → E: Mutants show a growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi486R → E: Mutants show a strong growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi487Y → A: Mutants show a strong growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi526N → A: Mutants show a growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi528L → D: Mutants show a growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi529W → A: Mutants show a growth defect after treatment with DNA-damaging agent MMS. 1 Publication1
Mutagenesisi530L → A: Mutants show no effect after treatment with DNA-damaging agent MMS. 1 Publication1

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002026291 – 759Holliday junction resolvase YEN1Add BLAST759

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei730PhosphoserineCombined sources1
Modified residuei731PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQB - The MaxQuant DataBase

More...
MaxQBi
P40028

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P40028

PRoteomics IDEntifications database

More...
PRIDEi
P40028

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
P40028

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
36777, 66 interactors

Database of interacting proteins

More...
DIPi
DIP-6450N

Protein interaction database and analysis system

More...
IntActi
P40028, 9 interactors

Molecular INTeraction database

More...
MINTi
P40028

STRING: functional protein association networks

More...
STRINGi
4932.YER041W

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...
RNActi
P40028, protein

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P40028

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni62 – 83DisorderedSequence analysisAdd BLAST22
Regioni498 – 518DisorderedSequence analysisAdd BLAST21
Regioni683 – 702DisorderedSequence analysisAdd BLAST20

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular type of amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi498 – 515Polar residuesSequence analysisAdd BLAST18

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2520, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_016401_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P40028

Identification of Orthologs from Complete Genome Data

More...
OMAi
FDGPMKP

Family and domain databases

Conserved Domains Database

More...
CDDi
cd09906, H3TH_YEN1, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR036279, 5-3_exonuclease_C_sf
IPR029060, PIN-like_dom_sf
IPR006086, XPG-I_dom
IPR006084, XPG/Rad2
IPR006085, XPG_DNA_repair_N
IPR037316, Yen1_H3TH

The PANTHER Classification System

More...
PANTHERi
PTHR11081, PTHR11081, 3 hits

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00867, XPG_I, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00853, XPGRADSUPER

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00484, XPGI, 1 hit
SM00485, XPGN, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF47807, SSF47807, 1 hit
SSF88723, SSF88723, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

P40028-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MGVSQIWEFL KPYLQDSRIP LRKFVIDFNK SQKRAPRIAI DAYGWLFECG
60 70 80 90 100
FIQNIDISAR SRSRSRSPTR SPRDSDIDSS QEYYGSRSYT TTGKAVINFI
110 120 130 140 150
SRLKELLSLN VEFLLVFDGV MKPSFKRKFN HEQNATTCDD EKEYYSSWEQ
160 170 180 190 200
HVKNHEVYGN CKGLLAPSDP EFISLVRKLL DLMNISYVIA CGEGEAQCVW
210 220 230 240 250
LQVSGAVDFI LSNDSDTLVF GGEKILKNYS KFYDDFGPSS ITSHSPSRHH
260 270 280 290 300
DSKESFVTVI DLPKINKVAG KKFDRLSLLF FSVLLGADYN RGVKGLGKNK
310 320 330 340 350
SLQLAQCEDP NFSMEFYDIF KDFNLEDLTS ESLRKSRYRL FQKRLYLYCK
360 370 380 390 400
DHSVELFGRN YPVLLNQGSF EGWPSTVAIM HYFHPIVQPY FDEEVLSDKY
410 420 430 440 450
INMAGNGHYR NLNFNELKYF LQSLNLPQIS SFDKWFHDSM HEMFLLREFL
460 470 480 490 500
SIDESDNIGK GNMRITEEKI MNIDGGKFQI PCFKIRYTTF LPNIPISSQS
510 520 530 540 550
PLKRSNSPSR SKSPTRRQMD IMEHPNSLWL PKYLIPQSHP LVIQYYETQQ
560 570 580 590 600
LIQKEKEKKG KKSNKSRLPQ KNNLDEFLRK HTSPIKSIGK VGESRKEILE
610 620 630 640 650
PVRKRLFVDT DEDTSLEEIP APTRLTTVDE HSDNDDDSLI FVDEITNSQS
660 670 680 690 700
VLDSSPGKRI RDLTQDEQVD VWKDVIEISP IKKSRTTNAE KNPPESGLKS
710 720 730 740 750
RSSITINARL QGTKMLPPNL TAPRLEREHS SVLDQLVTDA QDTVDRFVAC

DSDSSSTIE
Length:759
Mass (Da):87,364
Last modified:July 27, 2011 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iCE1305A9F78CA300
GO

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAA60376 differs from that shown. Reason: Frameshift.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti59A → P in AAB64576 (PubMed:9169868).Curated1
Sequence conflicti164 – 165LL → FV in AAA60376 (Ref. 1) Curated2
Sequence conflicti346Y → C in AAA60376 (Ref. 1) Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
U13615 Genomic DNA Translation: AAA60376.1 Frameshift.
U18796 Genomic DNA Translation: AAB64576.1
BK006939 Genomic DNA Translation: DAA07695.2

Protein sequence database of the Protein Information Resource

More...
PIRi
S50544

NCBI Reference Sequences

More...
RefSeqi
NP_010959.2, NM_001178932.2

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
YER041W_mRNA; YER041W; YER041W

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
856764

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
sce:YER041W

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U13615 Genomic DNA Translation: AAA60376.1 Frameshift.
U18796 Genomic DNA Translation: AAB64576.1
BK006939 Genomic DNA Translation: DAA07695.2
PIRiS50544
RefSeqiNP_010959.2, NM_001178932.2

3D structure databases

SMRiP40028
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi36777, 66 interactors
DIPiDIP-6450N
IntActiP40028, 9 interactors
MINTiP40028
STRINGi4932.YER041W

PTM databases

iPTMnetiP40028

Proteomic databases

MaxQBiP40028
PaxDbiP40028
PRIDEiP40028

Genome annotation databases

EnsemblFungiiYER041W_mRNA; YER041W; YER041W
GeneIDi856764
KEGGisce:YER041W

Organism-specific databases

SGDiS000000843, YEN1
VEuPathDBiFungiDB:YER041W

Phylogenomic databases

eggNOGiKOG2520, Eukaryota
HOGENOMiCLU_016401_0_0_1
InParanoidiP40028
OMAiFDGPMKP

Enzyme and pathway databases

BRENDAi3.1.22.4, 984

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P40028
RNActiP40028, protein

Family and domain databases

CDDicd09906, H3TH_YEN1, 1 hit
InterProiView protein in InterPro
IPR036279, 5-3_exonuclease_C_sf
IPR029060, PIN-like_dom_sf
IPR006086, XPG-I_dom
IPR006084, XPG/Rad2
IPR006085, XPG_DNA_repair_N
IPR037316, Yen1_H3TH
PANTHERiPTHR11081, PTHR11081, 3 hits
PfamiView protein in Pfam
PF00867, XPG_I, 1 hit
PRINTSiPR00853, XPGRADSUPER
SMARTiView protein in SMART
SM00484, XPGI, 1 hit
SM00485, XPGN, 1 hit
SUPFAMiSSF47807, SSF47807, 1 hit
SSF88723, SSF88723, 1 hit

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiYEN1_YEAST
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P40028
Secondary accession number(s): D3DLU1, Q02463
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: July 27, 2011
Last modified: September 29, 2021
This is version 162 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  2. Yeast chromosome V
    Yeast (Saccharomyces cerevisiae) chromosome V: entries and gene names
  3. SIMILARITY comments
    Index of protein domains and families
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