ID   DDB1_ORYSJ              Reviewed;        1090 AA.
AC   Q6L4S0; Q9FS08;
DT   02-NOV-2016, integrated into UniProtKB/Swiss-Prot.
DT   05-JUL-2004, sequence version 1.
DT   03-AUG-2022, entry version 136.
DE   RecName: Full=DNA damage-binding protein 1 {ECO:0000305};
DE   AltName: Full=UV-damaged DNA-binding protein 1 {ECO:0000305};
DE            Short=OsUV-DDB1 {ECO:0000303|PubMed:12711392};
GN   Name=DBB1 {ECO:0000305};
GN   OrderedLocusNames=Os05g0592400 {ECO:0000312|EMBL:BAF18409.1},
GN   LOC_Os05g51480 {ECO:0000305};
GN   ORFNames=OsJ_19757 {ECO:0000312|EMBL:EEE64898.1},
GN   P0663C08.8 {ECO:0000312|EMBL:AAT44300.1};
OS   Oryza sativa subsp. japonica (Rice).
OC   Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC   Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC   Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX   NCBI_TaxID=39947;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, SUBCELLULAR LOCATION, AND INTERACTION
RP   WITH DDB2.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=12711392; DOI=10.1016/s0378-1119(03)00447-5;
RA   Ishibashi T., Kimura S., Yamamoto T., Furukawa T., Takata K., Uchiyama Y.,
RA   Hashimoto J., Sakaguchi K.;
RT   "Rice UV-damaged DNA binding protein homologues are most abundant in
RT   proliferating tissues.";
RL   Gene 308:79-87(2003).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=16261349; DOI=10.1007/s00438-005-0039-y;
RA   Cheng C.-H., Chung M.C., Liu S.-M., Chen S.-K., Kao F.Y., Lin S.-J.,
RA   Hsiao S.-H., Tseng I.C., Hsing Y.-I.C., Wu H.-P., Chen C.-S., Shaw J.-F.,
RA   Wu J., Matsumoto T., Sasaki T., Chen H.-C., Chow T.-Y.;
RT   "A fine physical map of the rice chromosome 5.";
RL   Mol. Genet. Genomics 274:337-345(2005).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=16100779; DOI=10.1038/nature03895;
RG   International rice genome sequencing project (IRGSP);
RT   "The map-based sequence of the rice genome.";
RL   Nature 436:793-800(2005).
RN   [4]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=18089549; DOI=10.1093/nar/gkm978;
RG   The rice annotation project (RAP);
RT   "The rice annotation project database (RAP-DB): 2008 update.";
RL   Nucleic Acids Res. 36:D1028-D1033(2008).
RN   [5]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA   Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA   Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA   Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA   Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT   "Improvement of the Oryza sativa Nipponbare reference genome using next
RT   generation sequence and optical map data.";
RL   Rice 6:4-4(2013).
RN   [6]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=15685292; DOI=10.1371/journal.pbio.0030038;
RA   Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S.,
RA   Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.,
RA   Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J.,
RA   Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X.,
RA   Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y.,
RA   Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L.,
RA   Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H.,
RA   Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z.,
RA   Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L.,
RA   Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F.,
RA   Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q.,
RA   Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J.,
RA   Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M.,
RA   McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
RT   "The genomes of Oryza sativa: a history of duplications.";
RL   PLoS Biol. 3:266-281(2005).
RN   [7]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=12869764; DOI=10.1126/science.1081288;
RG   The rice full-length cDNA consortium;
RT   "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT   japonica rice.";
RL   Science 301:376-379(2003).
RN   [8]
RP   TISSUE SPECIFICITY.
RX   PubMed=15150342; DOI=10.1093/nar/gkh591;
RA   Kimura S., Tahira Y., Ishibashi T., Mori Y., Mori T., Hashimoto J.,
RA   Sakaguchi K.;
RT   "DNA repair in higher plants; photoreactivation is the major DNA repair
RT   pathway in non-proliferating cells while excision repair (nucleotide
RT   excision repair and base excision repair) is active in proliferating
RT   cells.";
RL   Nucleic Acids Res. 32:2760-2767(2004).
CC   -!- FUNCTION: Required for DNA repair. Binds to DDB2 to form the UV-damaged
CC       DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex
CC       may recognize UV-induced DNA damage and recruit proteins of the
CC       nucleotide excision repair pathway (the NER pathway) to initiate DNA
CC       repair (Probable). May function as the substrate recognition module for
CC       a DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complex (By
CC       similarity). {ECO:0000250|UniProtKB:Q16531,
CC       ECO:0000305|PubMed:12711392}.
CC   -!- SUBUNIT: Component of the UV-DDB complex, which is composed of DDB1 and
CC       DDB2. {ECO:0000269|PubMed:12711392}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
CC   -!- TISSUE SPECIFICITY: Expressed in proliferating tissues. Highly
CC       expressed in shoot apical meristem (SAM). Expressed in roots, young
CC       leaves, flag leaves, and panicles. Not detected in mature leaves.
CC       {ECO:0000269|PubMed:12711392, ECO:0000269|PubMed:15150342}.
CC   -!- SIMILARITY: Belongs to the DDB1 family. {ECO:0000305}.
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DR   EMBL; AB037144; BAB20761.1; -; mRNA.
DR   EMBL; AC130728; AAT44300.1; -; Genomic_DNA.
DR   EMBL; AP008211; BAF18409.1; -; Genomic_DNA.
DR   EMBL; AP014961; BAS95638.1; -; Genomic_DNA.
DR   EMBL; CM000142; EEE64898.1; -; Genomic_DNA.
DR   EMBL; AK065508; BAG89545.1; -; mRNA.
DR   RefSeq; XP_015639287.1; XM_015783801.1.
DR   AlphaFoldDB; Q6L4S0; -.
DR   SMR; Q6L4S0; -.
DR   STRING; 4530.OS05T0592400-01; -.
DR   PaxDb; Q6L4S0; -.
DR   PRIDE; Q6L4S0; -.
DR   EnsemblPlants; Os05t0592400-01; Os05t0592400-01; Os05g0592400.
DR   GeneID; 4339794; -.
DR   Gramene; Os05t0592400-01; Os05t0592400-01; Os05g0592400.
DR   KEGG; osa:4339794; -.
DR   eggNOG; KOG1897; Eukaryota.
DR   HOGENOM; CLU_002893_0_1_1; -.
DR   InParanoid; Q6L4S0; -.
DR   OMA; EMKGITH; -.
DR   OrthoDB; 146622at2759; -.
DR   Proteomes; UP000000763; Chromosome 5.
DR   Proteomes; UP000007752; Chromosome 5.
DR   Proteomes; UP000059680; Chromosome 5.
DR   ExpressionAtlas; Q6L4S0; baseline and differential.
DR   GO; GO:0005634; C:nucleus; IDA:UniProtKB.
DR   GO; GO:0003684; F:damaged DNA binding; IDA:UniProtKB.
DR   GO; GO:0006281; P:DNA repair; IEA:UniProtKB-KW.
DR   Gene3D; 2.130.10.10; -; 3.
DR   InterPro; IPR004871; Cleavage/polyA-sp_fac_asu_C.
DR   InterPro; IPR018846; Cleavage/polyA-sp_fac_asu_N.
DR   InterPro; IPR011047; Quinoprotein_ADH-like_supfam.
DR   InterPro; IPR015943; WD40/YVTN_repeat-like_dom_sf.
DR   Pfam; PF03178; CPSF_A; 1.
DR   Pfam; PF10433; MMS1_N; 1.
DR   SUPFAM; SSF50998; SSF50998; 1.
PE   1: Evidence at protein level;
KW   DNA damage; DNA repair; DNA-binding; Nucleus; Reference proteome;
KW   Ubl conjugation pathway.
FT   CHAIN           1..1090
FT                   /note="DNA damage-binding protein 1"
FT                   /id="PRO_0000438214"
FT   CONFLICT        566
FT                   /note="L -> F (in Ref. 1; BAB20761)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        713..716
FT                   /note="NEQA -> DHQT (in Ref. 1; BAB20761)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        965..968
FT                   /note="VNRL -> GNRF (in Ref. 1; BAB20761)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   1090 AA;  121880 MW;  10AFC3BEC0310048 CRC64;
     MSVWNYVVTA HKPTSVTHSC VGNFTGPNQL NLIVAKCTRI EIHLLTPQGL QPMIDVPIYG
     RIATLELFRP HNETQDFLFI ATERYKFCVL QWDGEKSELL TRAMGDVSDR IGRPTDNGQI
     GIIDPDCRLI GLHLYDGLFK VIPFDNKGQL KEAFNIRLEE LQVLDIKFLY GCVKPTIVVL
     YQDNKDARHV KTYEVALKDK DFVEGPWSQN NLDNGAGLLI PVPAPLGGVI IIGEETIVYC
     NANSTFRAIP IKQSIIRAYG RVDPDGSRYL LGDNAGILHL LVLTHERERV TGLKIEYLGE
     TSIASSISYL DNGVVYVGSR FGDSQLVKLN LQADPNGSYV EVLERYVNLG PIVDFCVVDL
     DRQGQGQVVT CSGAFKDGSL RVVRNGIGIN EQASVELQGI KGLWSLKSSF NDPYDMYLVV
     SFISETRFLA MNMEDELEET EIEGFDAQTQ TLFCQNAIND LLIQVTANSV RLVSCTSREL
     VDQWNAPEGF SVNVASANAS QVLLATGGGH LVYLEIKDSK LVEVKHIQLE HEISCVDLNP
     IGENPQYSSL AAVGMWTDIS VRILSLPDLE LIRKENLGGE IVPRSVLLCT LEGVSYLLCA
     LGDGHLFSFL LNASTGELTD RKKVSLGTQP ISLRTFSSKG TTHVFASSDR PTVIYSSNKK
     LLYSNVNLKE VNHMCPFNTA AIPDSLAIAK EGELSIGTID DIQKLHIRTI PLNEQARRIC
     HQEQSRTLAF CSFKHNQTSI EESETHFVRL LDHQTFEFLS IYQLDQYEHG CSIISCSFSD
     DNNVYYCVGT AYVLPEENEP SKGRILVFAV EDGRLQLIVE KETKGAVYSL NAFNGKLLAA
     INQKIQLYKW MLREDGSHEL QSECGHHGHI LALYTQTRGD FIVVGDLMKS ISLLVYKHEE
     SAIEELARDY NANWMSAVEM LDDEIYIGAE NNYNIFTVRK NSDAATDEER GRLEVVGEYH
     LGEFVNRLRH GSLVMRLPDS EMGQIPTVIF GTINGVIGII ASLPHEQYVF LEKLQSTLVK
     FIKGVGNLSH EQWRSFHNDK KTSEARNFLD GDLIESFLDL SRNKMEEVAK GMGVPVEELS
     KRVEELTRLH