C3H54_ORYSJ
ID C3H54_ORYSJ Reviewed; 653 AA.
AC Q6ZK57;
DT 02-SEP-2008, integrated into UniProtKB/Swiss-Prot.
DT 02-SEP-2008, sequence version 2.
DT 03-AUG-2022, entry version 110.
DE RecName: Full=Zinc finger CCCH domain-containing protein 54;
DE Short=OsC3H54;
GN OrderedLocusNames=Os08g0126700, LOC_Os08g03310;
GN ORFNames=OJ1163_G08.18, OsJ_024860;
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=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 [2]
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 [3]
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 [4]
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 [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
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 [6]
RP NOMENCLATURE.
RX PubMed=18221561; DOI=10.1186/1471-2164-9-44;
RA Wang D., Guo Y., Wu C., Yang G., Li Y., Zheng C.;
RT "Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.";
RL BMC Genomics 9:44-44(2008).
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q6ZK57-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q6ZK57-2; Sequence=VSP_035022;
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DR EMBL; AP003886; BAD08853.1; -; Genomic_DNA.
DR EMBL; AP008214; BAF22813.1; -; Genomic_DNA.
DR EMBL; AP014964; BAT03665.1; -; Genomic_DNA.
DR EMBL; CM000145; EAZ41377.1; -; Genomic_DNA.
DR EMBL; AK111902; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; XP_015648182.1; XM_015792696.1. [Q6ZK57-1]
DR RefSeq; XP_015648185.1; XM_015792699.1. [Q6ZK57-2]
DR RefSeq; XP_015648186.1; XM_015792700.1. [Q6ZK57-2]
DR AlphaFoldDB; Q6ZK57; -.
DR SMR; Q6ZK57; -.
DR STRING; 4530.OS08T0126700-02; -.
DR PaxDb; Q6ZK57; -.
DR PRIDE; Q6ZK57; -.
DR EnsemblPlants; Os08t0126700-01; Os08t0126700-01; Os08g0126700. [Q6ZK57-2]
DR GeneID; 4344566; -.
DR Gramene; Os08t0126700-01; Os08t0126700-01; Os08g0126700. [Q6ZK57-2]
DR KEGG; osa:4344566; -.
DR eggNOG; ENOG502QS3A; Eukaryota.
DR InParanoid; Q6ZK57; -.
DR OrthoDB; 821245at2759; -.
DR Proteomes; UP000000763; Chromosome 8.
DR Proteomes; UP000007752; Chromosome 8.
DR Proteomes; UP000059680; Chromosome 8.
DR Genevisible; Q6ZK57; OS.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
DR CDD; cd12458; RRM_AtC3H46_like; 1.
DR Gene3D; 3.30.70.330; -; 1.
DR InterPro; IPR034365; AtC3H46-like_RRM.
DR InterPro; IPR012677; Nucleotide-bd_a/b_plait_sf.
DR InterPro; IPR025605; OST-HTH/LOTUS_dom.
DR InterPro; IPR035979; RBD_domain_sf.
DR InterPro; IPR000504; RRM_dom.
DR InterPro; IPR000571; Znf_CCCH.
DR InterPro; IPR036855; Znf_CCCH_sf.
DR Pfam; PF12872; OST-HTH; 1.
DR Pfam; PF00076; RRM_1; 1.
DR Pfam; PF00642; zf-CCCH; 1.
DR SMART; SM00360; RRM; 1.
DR SUPFAM; SSF54928; SSF54928; 1.
DR SUPFAM; SSF90229; SSF90229; 1.
DR PROSITE; PS51644; HTH_OST; 1.
DR PROSITE; PS50102; RRM; 1.
DR PROSITE; PS50103; ZF_C3H1; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; Coiled coil; DNA-binding; Metal-binding;
KW Reference proteome; RNA-binding; Zinc; Zinc-finger.
FT CHAIN 1..653
FT /note="Zinc finger CCCH domain-containing protein 54"
FT /id="PRO_0000346847"
FT DOMAIN 313..396
FT /note="HTH OST-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00975"
FT DOMAIN 422..497
FT /note="RRM"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00176"
FT ZN_FING 260..287
FT /note="C3H1-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00723"
FT REGION 242..261
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 598..623
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COILED 537..565
FT /evidence="ECO:0000255"
FT COMPBIAS 604..623
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 1..49
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_035022"
FT CONFLICT 54
FT /note="E -> K (in Ref. 5; AK111902)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 653 AA; 71818 MW; 3804BC7C7948A18B CRC64;
MRCDRCARDT IHPIESRALD RSRILFLLCC YKRRPRFRFH VHQWWWWVAM EVPELVKLAF
ARVQRVEPEH VGKIFGVMLL REPDEDELVQ LAYGPEATLL AKIEDTKAAL TVIYARCSAA
AAHGPPGGGG VGVGGGGGYH QQPQQLFSRP PVPACGGVRH HYSPAAAAAA AFGYQVQSPQ
YWPDSPPAPP TKAAQQEFAP PGLVVDASAE GPYPLRGGQH VLDDNNFGGG YYYPAGEDAF
PNGGGGGGGS PARARRSNGL STRRPCHYFS KGICKNGQNC HYSHHQVYQD ALAGAAINGD
VYNHQPGGVT PGSLETLEME ITELLNSRRG QPVSIASLPT LYGEKYGKGL QADGYLTESQ
RHGKAGYSLT RLLSRLNKIR VIERPHGQHS VVLAEDAAKY MDFRGGGGGG GGDTGSVPAS
SHQIYLTFPA ESTFAEDDVA NYFGQYGPVR DVRIPCQERR MFGFVSFQSP ETVSTILMRR
NPHFICGSRV LVKPYREKSK CVDRTCVDNI KSMVPYCPPR FFEFDQELYT AEYDASRLMR
KQLAEKREML LEMERRRATV RRLESMPPQF AYFDCSIEDA SPLHSLQDDS KQLDLMNPSL
ASPDPLEIVS NSQAPPTQAG NIYDDHESNQ IELLPESPFA ASAPAGNSIS TII
