ID ALFL5_ORYSJ Reviewed; 258 AA. AC Q60DW3; A0A0P0WMG7; DT 21-SEP-2011, integrated into UniProtKB/Swiss-Prot. DT 23-NOV-2004, sequence version 1. DT 12-OCT-2022, entry version 117. DE RecName: Full=PHD finger protein ALFIN-LIKE 5; GN OrderedLocusNames=Os05g0419100, LOC_Os05g34640; GN ORFNames=OsJ_18575, P0426G01.9; 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 [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 [2] 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 [3] 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 [4] 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 [5] 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 [6] 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 [7] RP GENE FAMILY. RX PubMed=19154204; DOI=10.1111/j.1365-313x.2009.03795.x; RA Lee W.Y., Lee D., Chung W.I., Kwon C.S.; RT "Arabidopsis ING and Alfin1-like protein families localize to the nucleus RT and bind to H3K4me3/2 via plant homeodomain fingers."; RL Plant J. 58:511-524(2009). CC -!- FUNCTION: Histone-binding component that specifically recognizes H3 CC tails trimethylated on 'Lys-4' (H3K4me3), which mark transcription CC start sites of virtually all active genes. {ECO:0000250}. CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}. CC -!- DOMAIN: The PHD-type zinc finger mediates the binding to H3K4me3. CC {ECO:0000250}. CC -!- SIMILARITY: Belongs to the Alfin family. {ECO:0000305}. CC -!- CAUTION: Lacks the Tyr (here Asp-212), a conserved feature of the CC aromatic cage required for the interaction with histone H3K4me3/2. CC {ECO:0000305}. CC --------------------------------------------------------------------------- CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms CC Distributed under the Creative Commons Attribution (CC BY 4.0) License CC --------------------------------------------------------------------------- DR EMBL; AC137623; AAV25644.1; -; Genomic_DNA. DR EMBL; AP008211; BAF17484.1; -; Genomic_DNA. DR EMBL; AP014961; BAS94060.1; -; Genomic_DNA. DR EMBL; CM000142; EEE63756.1; -; Genomic_DNA. DR EMBL; AK121400; BAH00468.1; -; mRNA. DR RefSeq; XP_015640195.1; XM_015784709.1. DR AlphaFoldDB; Q60DW3; -. DR SMR; Q60DW3; -. DR STRING; 4530.OS05T0419100-01; -. DR PaxDb; Q60DW3; -. DR EnsemblPlants; Os05t0419100-01; Os05t0419100-01; Os05g0419100. DR GeneID; 4338816; -. DR Gramene; Os05t0419100-01; Os05t0419100-01; Os05g0419100. DR KEGG; osa:4338816; -. DR eggNOG; KOG1632; Eukaryota. DR HOGENOM; CLU_058315_0_0_1; -. DR InParanoid; Q60DW3; -. DR OMA; TRASKMH; -. DR OrthoDB; 1275921at2759; -. DR Proteomes; UP000000763; Chromosome 5. DR Proteomes; UP000007752; Chromosome 5. DR Proteomes; UP000059680; Chromosome 5. DR Genevisible; Q60DW3; OS. DR GO; GO:0005634; C:nucleus; IBA:GO_Central. DR GO; GO:0042393; F:histone binding; IEA:InterPro. DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW. DR GO; GO:0000976; F:transcription cis-regulatory region binding; IBA:GO_Central. DR GO; GO:0003712; F:transcription coregulator activity; IBA:GO_Central. DR GO; GO:0006325; P:chromatin organization; IEA:UniProtKB-KW. DR GO; GO:0006355; P:regulation of DNA-templated transcription; IEA:InterPro. DR CDD; cd15613; PHD_AL_plant; 1. DR Gene3D; 3.30.40.10; -; 1. DR InterPro; IPR045104; Alfin. DR InterPro; IPR021998; Alfin_N. DR InterPro; IPR044104; PHD_AL_plant. DR InterPro; IPR019786; Zinc_finger_PHD-type_CS. DR InterPro; IPR011011; Znf_FYVE_PHD. DR InterPro; IPR001965; Znf_PHD. DR InterPro; IPR019787; Znf_PHD-finger. DR InterPro; IPR013083; Znf_RING/FYVE/PHD. DR PANTHER; PTHR12321; PTHR12321; 1. DR Pfam; PF12165; Alfin; 1. DR Pfam; PF00628; PHD; 1. DR SMART; SM00249; PHD; 1. DR SUPFAM; SSF57903; SSF57903; 1. DR PROSITE; PS01359; ZF_PHD_1; 1. DR PROSITE; PS50016; ZF_PHD_2; 1. PE 2: Evidence at transcript level; KW Chromatin regulator; Metal-binding; Nucleus; Reference proteome; KW Transcription; Transcription regulation; Zinc; Zinc-finger. FT CHAIN 1..258 FT /note="PHD finger protein ALFIN-LIKE 5" FT /id="PRO_0000412945" FT ZN_FING 202..254 FT /note="PHD-type" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00146" FT REGION 143..205 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 147..169 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 187..201 FT /note="Acidic residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT SITE 218 FT /note="Histone H3K4me3 binding" FT /evidence="ECO:0000250" FT SITE 222 FT /note="Histone H3K4me3 binding" FT /evidence="ECO:0000250" FT SITE 227 FT /note="Histone H3K4me3 binding" FT /evidence="ECO:0000250" SQ SEQUENCE 258 AA; 29105 MW; FF03F6E17727CF3E CRC64; MDGGSGGPYT SRTAEEVFRD FRGRRAGMIK ALTTDVEKFY QLCDPEKENL CLYGYPNETW EVTLPAEEVP PEIPEPALGI NFARDGMNEK DWLALVAVHS DSWLLAVAFY FAARFGFDKE ARRRLFNMIN NLPTIFEVVT GAAKKQTKEK APNSTNKPNK PSSKMQPRPE SHSKAPKPPA PPKDDDESGD EYADEEEEER DNTLCGSCGT NDGKDEFWIC CDSCERWYHG KCVKITPARA EHIKHYKCPD CGNKRARA //