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P14736

- RAD4_YEAST

UniProt

P14736 - RAD4_YEAST

Protein

DNA repair protein RAD4

Gene

RAD4

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 130 (01 Oct 2014)
      Sequence version 3 (21 Sep 2011)
      Previous versions | rss
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    Functioni

    Involved in nucleotide excision repair of DNA damaged with UV light, bulky adducts, or cross-linking agents.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi250 – 26920Sequence AnalysisAdd
    BLAST

    GO - Molecular functioni

    1. damaged DNA binding Source: SGD
    2. protein binding Source: IntAct

    GO - Biological processi

    1. nucleotide-excision repair Source: SGD
    2. proteasome-mediated ubiquitin-dependent protein catabolic process Source: SGD

    Keywords - Biological processi

    DNA damage, DNA repair

    Keywords - Ligandi

    DNA-binding

    Enzyme and pathway databases

    BioCyciYEAST:G3O-30323-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA repair protein RAD4
    Gene namesi
    Name:RAD4
    Ordered Locus Names:YER162C
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome V

    Organism-specific databases

    SGDiS000000964. RAD4.

    Subcellular locationi

    Cytoplasm 1 Publication. Nucleus 1 Publication

    GO - Cellular componenti

    1. cytosol Source: SGD
    2. nucleotide-excision repair factor 2 complex Source: SGD
    3. nucleus Source: SGD

    Keywords - Cellular componenti

    Cytoplasm, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 754754DNA repair protein RAD4PRO_0000218298Add
    BLAST

    Proteomic databases

    MaxQBiP14736.
    PaxDbiP14736.
    PeptideAtlasiP14736.

    Expressioni

    Gene expression databases

    GenevestigatoriP14736.

    Interactioni

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    RAD23P326283EBI-14766,EBI-14668

    Protein-protein interaction databases

    BioGridi36915. 134 interactions.
    DIPiDIP-1547N.
    IntActiP14736. 5 interactions.
    MINTiMINT-396392.
    STRINGi4932.YER162C.

    Structurei

    Secondary structure

    1
    754
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Turni91 – 944
    Helixi124 – 1296
    Helixi134 – 16229
    Helixi165 – 1717
    Helixi172 – 1743
    Helixi177 – 1826
    Helixi193 – 21321
    Beta strandi221 – 2233
    Helixi230 – 2356
    Turni236 – 2394
    Helixi248 – 25710
    Helixi262 – 27514
    Beta strandi280 – 2867
    Helixi306 – 3094
    Beta strandi314 – 3218
    Turni322 – 3254
    Beta strandi326 – 33510
    Beta strandi337 – 3393
    Turni352 – 3554
    Beta strandi362 – 3665
    Beta strandi372 – 3743
    Helixi376 – 3794
    Helixi383 – 3875
    Helixi388 – 3903
    Helixi392 – 3943
    Helixi396 – 40914
    Helixi416 – 43116
    Beta strandi436 – 4383
    Helixi439 – 4413
    Beta strandi445 – 4495
    Helixi450 – 4523
    Beta strandi457 – 4593
    Beta strandi466 – 4705
    Beta strandi478 – 4836
    Helixi484 – 4863
    Beta strandi487 – 4893
    Helixi493 – 4975
    Turni498 – 5003
    Beta strandi501 – 5033
    Beta strandi510 – 5134
    Beta strandi529 – 5324
    Helixi534 – 5363
    Beta strandi537 – 5393
    Helixi564 – 5663
    Beta strandi571 – 5755
    Helixi579 – 5857
    Beta strandi591 – 5977
    Beta strandi601 – 6033
    Beta strandi607 – 6159
    Helixi616 – 6183
    Helixi619 – 6279
    Helixi629 – 6313

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2M14NMR-B76-115[»]
    2QSFX-ray2.35A101-632[»]
    2QSGX-ray3.10A101-632[»]
    2QSHX-ray2.81A101-632[»]
    ProteinModelPortaliP14736.
    SMRiP14736. Positions 123-632.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP14736.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the XPC family.Curated

    Phylogenomic databases

    eggNOGiCOG5535.
    GeneTreeiENSGT00390000005194.
    HOGENOMiHOG000074544.
    KOiK10838.
    OMAiCEVWDKF.
    OrthoDBiEOG7H79C5.

    Family and domain databases

    InterProiIPR004583. DNA_repair_Rad4.
    IPR018325. Rad4/PNGase_transGLS-fold.
    IPR018326. Rad4_beta-hairpin_dom1.
    IPR018327. Rad4_beta-hairpin_dom2.
    IPR018328. Rad4_beta-hairpin_dom3.
    [Graphical view]
    PANTHERiPTHR12135. PTHR12135. 1 hit.
    PfamiPF10403. BHD_1. 1 hit.
    PF10404. BHD_2. 1 hit.
    PF10405. BHD_3. 1 hit.
    PF03835. Rad4. 1 hit.
    [Graphical view]
    SMARTiSM01030. BHD_1. 1 hit.
    SM01031. BHD_2. 1 hit.
    SM01032. BHD_3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P14736-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNEDLPKEYF ELIRKALNEK EAEKAPLSRR RRVRRKNQPL PDAKKKFKTG    50
    LNELPRESVV TVNLDSSDDG VVTVPTDDSV EEIQSSEEDY DSEEFEDVTD 100
    GNEVAGVEDI SVEIKPSSKR NSDARRTSRN VCSNEERKRR KYFHMLYLVC 150
    LMVHGFIRNE WINSKRLSRK LSNLVPEKVF ELLHPQKDEE LPLRSTRKLL 200
    DGLKKCMELW QKHWKITKKY DNVGLYMRTW KEIEMSANNK RKFKTLKRSD 250
    FLRAVSKGHG DPDISVQGFV AMLRACNVNA RLIMSCQPPD FTNMKIDTSL 300
    NGNNAYKDMV KYPIFWCEVW DKFSKKWITV DPVNLKTIEQ VRLHSKLAPK 350
    GVACCERNML RYVIAYDRKY GCRDVTRRYA QWMNSKVRKR RITKDDFGEK 400
    WFRKVITALH HRKRTKIDDY EDQYFFQRDE SEGIPDSVQD LKNHPYYVLE 450
    QDIKQTQIVK PGCKECGYLK VHGKVGKVLK VYAKRDIADL KSARQWYMNG 500
    RILKTGSRCK KVIKRTVGRP KGEAEEEDER LYSFEDTELY IPPLASASGE 550
    ITKNTFGNIE VFAPTMIPGN CCLVENPVAI KAARFLGVEF APAVTSFKFE 600
    RGSTVKPVLS GIVVAKWLRE AIETAIDGIE FIQEDDNRKE HLLGALESWN 650
    TLLLKLRIRS KLNSTYGKIA EEEPNVTKEQ NIADNHDNTE TFMGGGFLPG 700
    IANHEARPYS EPSEPEDSLD YVSVDKAEES ATDDDVGEDY SDFMKELEMS 750
    EESD 754
    Length:754
    Mass (Da):87,174
    Last modified:September 21, 2011 - v3
    Checksum:i788D3B6F580D2BF8
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti223 – 2231V → E in AAB64689. (PubMed:9169868)Curated
    Sequence conflicti225 – 2251L → I in AAA34944. (PubMed:3073107)Curated
    Sequence conflicti225 – 2251L → I in AAA34945. (PubMed:2649477)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M26050 Genomic DNA. Translation: AAA34944.1.
    M24928 Genomic DNA. Translation: AAA34945.1.
    U18917 Genomic DNA. Translation: AAB64689.1.
    BK006939 Genomic DNA. Translation: DAA07824.2.
    PIRiS30814. DDBYD4.
    RefSeqiNP_011089.4. NM_001179052.4.

    Genome annotation databases

    EnsemblFungiiYER162C; YER162C; YER162C.
    GeneIDi856909.
    KEGGisce:YER162C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M26050 Genomic DNA. Translation: AAA34944.1 .
    M24928 Genomic DNA. Translation: AAA34945.1 .
    U18917 Genomic DNA. Translation: AAB64689.1 .
    BK006939 Genomic DNA. Translation: DAA07824.2 .
    PIRi S30814. DDBYD4.
    RefSeqi NP_011089.4. NM_001179052.4.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2M14 NMR - B 76-115 [» ]
    2QSF X-ray 2.35 A 101-632 [» ]
    2QSG X-ray 3.10 A 101-632 [» ]
    2QSH X-ray 2.81 A 101-632 [» ]
    ProteinModelPortali P14736.
    SMRi P14736. Positions 123-632.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 36915. 134 interactions.
    DIPi DIP-1547N.
    IntActi P14736. 5 interactions.
    MINTi MINT-396392.
    STRINGi 4932.YER162C.

    Proteomic databases

    MaxQBi P14736.
    PaxDbi P14736.
    PeptideAtlasi P14736.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YER162C ; YER162C ; YER162C .
    GeneIDi 856909.
    KEGGi sce:YER162C.

    Organism-specific databases

    SGDi S000000964. RAD4.

    Phylogenomic databases

    eggNOGi COG5535.
    GeneTreei ENSGT00390000005194.
    HOGENOMi HOG000074544.
    KOi K10838.
    OMAi CEVWDKF.
    OrthoDBi EOG7H79C5.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-30323-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P14736.
    NextBioi 983347.
    PROi P14736.

    Gene expression databases

    Genevestigatori P14736.

    Family and domain databases

    InterProi IPR004583. DNA_repair_Rad4.
    IPR018325. Rad4/PNGase_transGLS-fold.
    IPR018326. Rad4_beta-hairpin_dom1.
    IPR018327. Rad4_beta-hairpin_dom2.
    IPR018328. Rad4_beta-hairpin_dom3.
    [Graphical view ]
    PANTHERi PTHR12135. PTHR12135. 1 hit.
    Pfami PF10403. BHD_1. 1 hit.
    PF10404. BHD_2. 1 hit.
    PF10405. BHD_3. 1 hit.
    PF03835. Rad4. 1 hit.
    [Graphical view ]
    SMARTi SM01030. BHD_1. 1 hit.
    SM01031. BHD_2. 1 hit.
    SM01032. BHD_3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Cloning and nucleotide sequence analysis of the Saccharomyces cerevisiae RAD4 gene required for excision repair of UV-damaged DNA."
      Gietz R.D., Prakash S.
      Gene 74:535-541(1988) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "Nucleotide sequence of the wild-type RAD4 gene of Saccharomyces cerevisiae and characterization of mutant rad4 alleles."
      Couto L.B., Friedberg E.C.
      J. Bacteriol. 171:1862-1869(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    4. Cited for: GENOME REANNOTATION, SEQUENCE REVISION TO 223.
      Strain: ATCC 204508 / S288c.
    5. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    7. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiRAD4_YEAST
    AccessioniPrimary (citable) accession number: P14736
    Secondary accession number(s): D3DM70
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 1, 1990
    Last sequence update: September 21, 2011
    Last modified: October 1, 2014
    This is version 130 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 876 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

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

    External Data

    Dasty 3