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A1A4K3

- DDB1_BOVIN

UniProt

A1A4K3 - DDB1_BOVIN

Protein

DNA damage-binding protein 1

Gene

DDB1

Organism
Bos taurus (Bovine)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 65 (01 Oct 2014)
      Sequence version 1 (23 Jan 2007)
      Previous versions | rss
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    Functioni

    Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutane pyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1. DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 and histone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from the nucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPC and promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitination of TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays a role in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associated with CUL4 and SKP2 By similarity.By similarity

    Pathwayi

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW

    GO - Biological processi

    1. DNA repair Source: UniProtKB-KW
    2. proteasome-mediated ubiquitin-dependent protein catabolic process Source: UniProtKB
    3. protein ubiquitination involved in ubiquitin-dependent protein catabolic process Source: Ensembl
    4. regulation of mitotic cell cycle phase transition Source: Ensembl
    5. Wnt signaling pathway Source: Ensembl

    Keywords - Biological processi

    DNA damage, DNA repair, Ubl conjugation pathway

    Keywords - Ligandi

    DNA-binding

    Enzyme and pathway databases

    ReactomeiREACT_206481. Dual incision reaction in GG-NER.
    REACT_211596. Formation of incision complex in GG-NER.
    UniPathwayiUPA00143.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA damage-binding protein 1
    Alternative name(s):
    Damage-specific DNA-binding protein 1
    Gene namesi
    Name:DDB1
    OrganismiBos taurus (Bovine)
    Taxonomic identifieri9913 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaLaurasiatheriaCetartiodactylaRuminantiaPecoraBovidaeBovinaeBos
    ProteomesiUP000009136: Chromosome 29

    Subcellular locationi

    Cytoplasm By similarity. Nucleus By similarity
    Note: Primarily cytoplasmic. Translocates to the nucleus following UV irradiation and subsequently accumulates at sites of DNA damage By similarity.By similarity

    GO - Cellular componenti

    1. Cul4A-RING E3 ubiquitin ligase complex Source: UniProtKB
    2. Cul4B-RING E3 ubiquitin ligase complex Source: UniProtKB
    3. Cul4-RING E3 ubiquitin ligase complex Source: UniProtKB
    4. cytoplasm Source: UniProtKB
    5. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Cytoplasm, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11RemovedBy similarity
    Chaini2 – 11401139DNA damage-binding protein 1PRO_0000281035Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylserineBy similarity
    Modified residuei1067 – 10671N6-acetyllysineBy similarity

    Post-translational modificationi

    Ubiquitinated by CUL4A. Subsequently degraded by ubiquitin-dependent proteolysis By similarity.By similarity

    Keywords - PTMi

    Acetylation, Ubl conjugation

    Proteomic databases

    PaxDbiA1A4K3.
    PRIDEiA1A4K3.

    Interactioni

    Subunit structurei

    Component of the UV-DDB complex which includes DDB1 and DDB2. The UV-DDB complex interacts with monoubiquitinated histone H2A and binds to XPC via the DDB2 subunit. Component of numerous DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which consist of a core of DDB1, CUL4A or CUL4B and RBX1. DDB1 may recruit specific substrate targeting subunits to the DCX complex. These substrate targeting subunits are generally known as DCAF (DDB1- and CUL4-associated factor) or CDW (CUL4-DDB1-associated WD40-repeat) proteins. Interacts with AMBRA1, ATG16L1, BTRC, DCAF17, DCAF16, DCAF15, DDA1, DET1, DTL, ERCC8, FBXW5, FBXW8, GRWD1, DCAF6, KATNB1, NLE1, NUP43, PAFAH1B1, PHIP, PWP1, RBBP4, RBBP5, RBBP7, RFWD2, SNRNP40, VPRBP, WDR5, WDR5B, WDR12, DCAF4, DCAF5, DCAF11, WDR26, DCAF10, WDR39, DCAF12, WDR42, DCAF8, WDR53, WDR59, WDR61, DCAF7, WSB1, WSB2, LRWD1 and WDTC1. DCX complexes may associate with the COP9 signalosome, and this inhibits the E3 ubiquitin-protein ligase activity of the complex. Interacts with NF2, TSC1 and TSC2. Interacts with AGO1 and AGO2. Associates with the E3 ligase complex containing DYRK2, EDD/UBR5, DDB1 and VPRBP proteins (EDVP complex). Interacts directly with DYRK2 By similarity.By similarity

    Protein-protein interaction databases

    STRINGi9913.ENSBTAP00000028740.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni2 – 768767Interaction with CDT1By similarityAdd
    BLAST
    Regioni13 – 356344WD repeat beta-propeller ABy similarityAdd
    BLAST
    Regioni391 – 708318WD repeat beta-propeller B; Interaction with CUL4ABy similarityAdd
    BLAST
    Regioni709 – 1043335WD repeat beta-propeller CBy similarityAdd
    BLAST
    Regioni771 – 1140370Interaction with CDT1 and CUL4ABy similarityAdd
    BLAST

    Domaini

    The core of the protein consists of three WD40 beta-propeller domains.By similarity

    Sequence similaritiesi

    Belongs to the DDB1 family.Curated

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiNOG247734.
    GeneTreeiENSGT00530000063396.
    HOGENOMiHOG000007241.
    HOVERGENiHBG005460.
    InParanoidiA1A4K3.
    KOiK10610.
    OMAiMCPLNSE.
    OrthoDBiEOG7X0VG9.
    TreeFamiTF105840.

    Family and domain databases

    Gene3Di2.130.10.10. 4 hits.
    InterProiIPR004871. Cleavage/polyA-sp_fac_asu_C.
    IPR011047. Quinonprotein_ADH-like_supfam.
    IPR015943. WD40/YVTN_repeat-like_dom.
    [Graphical view]
    PfamiPF03178. CPSF_A. 1 hit.
    [Graphical view]
    SUPFAMiSSF50998. SSF50998. 2 hits.

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    A1A4K3-1 [UniParc]FASTAAdd to Basket

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    MSYNYVVTAQ KPTAVNGCVT GHFTSAEDLN LLIAKNTRLE IYVVTAEGLR     50
    PVKEVGMYGK IAVMELFRPK GESKDLLFIL TAKYNACILE YKQSGESIDI 100
    ITRAHGNVQD RIGRPSETGI IGIIDPECRM IGLRLYDGLF KVIPLDRDNK 150
    ELKAFNIRLE ELHVIDVKFL YGCQAPTICF VYQDPQGRHV KTYEVSLREK 200
    EFNKGPWKQE NVEAEASMVI AVPEPFGGAI IIGQESITYH NGDKYLAIAP 250
    PIIKQSTIVC HNRVDPNGSR YLLGDMEGRL FMLLLEKEEQ MDGTVTLKDL 300
    RVELLGETSI AECLTYLDNG VVFVGSRLGD SQLVKLNVDS NEQGSYVVAM 350
    ETFTNLGPIV DMCVVDLERQ GQGQLVTCSG AFKEGSLRII RNGIGIHEHA 400
    SIDLPGIKGL WPLRSDPNRE TDDTLVLSFV GQTRVLMLNG EEVEETELMG 450
    FVDDQQTFFC GNVAHQQLIQ ITSASVRLVS QEPKALVSEW KEPQGKNISV 500
    ASCNSSQVVV AVGRALYYLQ IHPQELRQIS HTEMEHEVAC LDITPLGDSN 550
    GMSPLCAIGL WTDISARIAK LPSFELLHKE MLGGEIIPRS ILMTTFESSH 600
    YLLCALGDGA LFYFGLNIET GLLSDRKKVT LGTQPTVLRT FRSLSTTNVF 650
    ACSDRPTVIY SSNHKLVFSN VNLKEVNYMC PLNSDGYPDS LALANNSTLT 700
    IGTIDEIQKL HIRTVPLYES PRKICYQEVS QCFGVLSSRI EVQDTSGGTT 750
    ALRPSASTQA LSSSVSSSKL FSSSTAPHET SFGEEVEVHN LLIIDQHTFE 800
    VLHAHQFLQN EYALSLVSCK LGKDPNTYFI VGTAMVYPEE AEPKQGRIVV 850
    FQYSDGKLQT VAEKEVKGAV YSMVEFNGKL LASINSTVRL YEWTTEKELR 900
    TECNHYNNIM ALYLKTKGDF ILVGDLMRSV LLLAYKPMEG NFEEIARDFN 950
    PNWMSAVEIL DDDNFLGAEN AFNLFVCQKD SAATTDEERQ HLQEVGLFHL 1000
    GEFVNVFCHG SLVMQNLGET STPTQGSVLF GTVNGMIGLV TSLSESWYNL 1050
    LLDMQNRLNK VIKSVGKIEH SFWRSFHTER KTEPATGFID GDLIESFLDI 1100
    SRPKMQEVVA NLQYDDGSGM KREATADDLI KVVEELTRIH 1140
    Length:1,140
    Mass (Da):126,930
    Last modified:January 23, 2007 - v1
    Checksum:i8E4A2A0859180271
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC126629 mRNA. Translation: AAI26630.1.
    RefSeqiNP_001073731.1. NM_001080262.1.
    UniGeneiBt.62917.

    Genome annotation databases

    EnsembliENSBTAT00000028740; ENSBTAP00000028740; ENSBTAG00000021569.
    GeneIDi511951.
    KEGGibta:511951.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC126629 mRNA. Translation: AAI26630.1 .
    RefSeqi NP_001073731.1. NM_001080262.1.
    UniGenei Bt.62917.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 9913.ENSBTAP00000028740.

    Proteomic databases

    PaxDbi A1A4K3.
    PRIDEi A1A4K3.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSBTAT00000028740 ; ENSBTAP00000028740 ; ENSBTAG00000021569 .
    GeneIDi 511951.
    KEGGi bta:511951.

    Organism-specific databases

    CTDi 1642.

    Phylogenomic databases

    eggNOGi NOG247734.
    GeneTreei ENSGT00530000063396.
    HOGENOMi HOG000007241.
    HOVERGENi HBG005460.
    InParanoidi A1A4K3.
    KOi K10610.
    OMAi MCPLNSE.
    OrthoDBi EOG7X0VG9.
    TreeFami TF105840.

    Enzyme and pathway databases

    UniPathwayi UPA00143 .
    Reactomei REACT_206481. Dual incision reaction in GG-NER.
    REACT_211596. Formation of incision complex in GG-NER.

    Miscellaneous databases

    NextBioi 20870176.

    Family and domain databases

    Gene3Di 2.130.10.10. 4 hits.
    InterProi IPR004871. Cleavage/polyA-sp_fac_asu_C.
    IPR011047. Quinonprotein_ADH-like_supfam.
    IPR015943. WD40/YVTN_repeat-like_dom.
    [Graphical view ]
    Pfami PF03178. CPSF_A. 1 hit.
    [Graphical view ]
    SUPFAMi SSF50998. SSF50998. 2 hits.
    ProtoNeti Search...

    Publicationsi

    1. NIH - Mammalian Gene Collection (MGC) project
      Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: Hereford.
      Tissue: Fetal muscle.

    Entry informationi

    Entry nameiDDB1_BOVIN
    AccessioniPrimary (citable) accession number: A1A4K3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 20, 2007
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 65 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3