RB47C_ARATH
ID RB47C_ARATH Reviewed; 432 AA.
AC Q9SX79; F4HT91;
DT 22-FEB-2012, integrated into UniProtKB/Swiss-Prot.
DT 01-MAY-2000, sequence version 1.
DT 25-MAY-2022, entry version 135.
DE RecName: Full=Polyadenylate-binding protein RBP47C;
DE Short=Poly(A)-binding protein RBP47C;
DE AltName: Full=RNA-binding protein 47C;
DE Short=AtRBP47C;
GN Name=RBP47C; OrderedLocusNames=At1g47490; ORFNames=F16N3.24;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=11130712; DOI=10.1038/35048500;
RA Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O.,
RA Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E.,
RA Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K., Conn L.,
RA Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P.,
RA Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D.,
RA Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J.,
RA Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L.,
RA Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A.,
RA Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A.,
RA Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M.,
RA Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M.,
RA Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P.,
RA Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D.,
RA Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D.,
RA Yu G., Fraser C.M., Venter J.C., Davis R.W.;
RT "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana.";
RL Nature 408:816-820(2000).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 11-310 (ISOFORM 2).
RC STRAIN=cv. Columbia;
RX PubMed=14993207; DOI=10.1101/gr.1515604;
RA Castelli V., Aury J.-M., Jaillon O., Wincker P., Clepet C., Menard M.,
RA Cruaud C., Quetier F., Scarpelli C., Schaechter V., Temple G., Caboche M.,
RA Weissenbach J., Salanoubat M.;
RT "Whole genome sequence comparisons and 'full-length' cDNA sequences: a
RT combined approach to evaluate and improve Arabidopsis genome annotation.";
RL Genome Res. 14:406-413(2004).
RN [5]
RP TISSUE SPECIFICITY, GENE FAMILY, AND NOMENCLATURE.
RX PubMed=11105760; DOI=10.1017/s1355838200001163;
RA Lorkovic Z.J., Wieczorek Kirk D.A., Klahre U., Hemmings-Mieszczak M.,
RA Filipowicz W.;
RT "RBP45 and RBP47, two oligouridylate-specific hnRNP-like proteins
RT interacting with poly(A)+ RNA in nuclei of plant cells.";
RL RNA 6:1610-1624(2000).
RN [6]
RP GENE FAMILY.
RC STRAIN=cv. Columbia, and cv. Wassilewskija;
RX PubMed=21120628; DOI=10.1007/s10059-011-0001-2;
RA Peal L., Jambunathan N., Mahalingam R.;
RT "Phylogenetic and expression analysis of RNA-binding proteins with triple
RT RNA recognition motifs in plants.";
RL Mol. Cells 31:55-64(2011).
CC -!- FUNCTION: Heterogeneous nuclear ribonucleoprotein (hnRNP)-protein
CC binding the poly(A) tail of mRNA and probably involved in some steps of
CC pre-mRNA maturation. {ECO:0000250}.
CC -!- SUBUNIT: Interacts with the poly(A) tail of mRNA in nucleus.
CC {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}. Cytoplasmic granule
CC {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q9SX79-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q9SX79-2; Sequence=VSP_042356, VSP_042357;
CC -!- TISSUE SPECIFICITY: Expressed in leaves, stems, flowers, and seedlings.
CC {ECO:0000269|PubMed:11105760}.
CC -!- SIMILARITY: Belongs to the polyadenylate-binding RBP47 family.
CC {ECO:0000305}.
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DR EMBL; AC007519; AAD46038.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE32173.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE32174.1; -; Genomic_DNA.
DR EMBL; AF344325; AAK06876.1; -; mRNA.
DR EMBL; AY035180; AAK59684.1; -; mRNA.
DR EMBL; AY062960; AAL33806.1; -; mRNA.
DR EMBL; BX813781; -; NOT_ANNOTATED_CDS; mRNA.
DR PIR; B96515; B96515.
DR RefSeq; NP_175180.1; NM_103642.3. [Q9SX79-1]
DR RefSeq; NP_973984.1; NM_202255.2. [Q9SX79-2]
DR AlphaFoldDB; Q9SX79; -.
DR SMR; Q9SX79; -.
DR BioGRID; 26382; 1.
DR STRING; 3702.AT1G47490.1; -.
DR iPTMnet; Q9SX79; -.
DR PaxDb; Q9SX79; -.
DR PRIDE; Q9SX79; -.
DR ProteomicsDB; 236220; -. [Q9SX79-1]
DR EnsemblPlants; AT1G47490.1; AT1G47490.1; AT1G47490. [Q9SX79-1]
DR EnsemblPlants; AT1G47490.2; AT1G47490.2; AT1G47490. [Q9SX79-2]
DR GeneID; 841157; -.
DR Gramene; AT1G47490.1; AT1G47490.1; AT1G47490. [Q9SX79-1]
DR Gramene; AT1G47490.2; AT1G47490.2; AT1G47490. [Q9SX79-2]
DR KEGG; ath:AT1G47490; -.
DR Araport; AT1G47490; -.
DR TAIR; locus:2015403; AT1G47490.
DR eggNOG; KOG0118; Eukaryota.
DR HOGENOM; CLU_016304_2_1_1; -.
DR InParanoid; Q9SX79; -.
DR OMA; YQNANNG; -.
DR OrthoDB; 775799at2759; -.
DR PhylomeDB; Q9SX79; -.
DR PRO; PR:Q9SX79; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q9SX79; baseline and differential.
DR Genevisible; Q9SX79; AT.
DR GO; GO:0010494; C:cytoplasmic stress granule; ISS:UniProtKB.
DR GO; GO:0005829; C:cytosol; IBA:GO_Central.
DR GO; GO:0005634; C:nucleus; ISS:UniProtKB.
DR GO; GO:0003729; F:mRNA binding; IDA:TAIR.
DR GO; GO:0008143; F:poly(A) binding; ISS:UniProtKB.
DR GO; GO:0034605; P:cellular response to heat; ISS:UniProtKB.
DR GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
DR Gene3D; 3.30.70.330; -; 3.
DR InterPro; IPR012677; Nucleotide-bd_a/b_plait_sf.
DR InterPro; IPR035979; RBD_domain_sf.
DR InterPro; IPR000504; RRM_dom.
DR Pfam; PF00076; RRM_1; 3.
DR SMART; SM00360; RRM; 3.
DR SUPFAM; SSF54928; SSF54928; 2.
DR PROSITE; PS50102; RRM; 3.
PE 2: Evidence at transcript level;
KW Alternative splicing; mRNA processing; Nucleus; Reference proteome; Repeat;
KW RNA-binding.
FT CHAIN 1..432
FT /note="Polyadenylate-binding protein RBP47C"
FT /id="PRO_0000415769"
FT DOMAIN 101..183
FT /note="RRM 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00176"
FT DOMAIN 197..276
FT /note="RRM 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00176"
FT DOMAIN 304..376
FT /note="RRM 3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00176"
FT REGION 1..55
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 271..293
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1..18
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 19..35
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 277..291
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 306..310
FT /note="IFVGG -> VIVFP (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:14993207"
FT /id="VSP_042356"
FT VAR_SEQ 311..432
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:14993207"
FT /id="VSP_042357"
SQ SEQUENCE 432 AA; 48498 MW; 4C33874B16965D38 CRC64;
MADVKIQSES ESSDSHPVVD NQPPPPPPPP QQPAKEEENQ PKTSPTPPPH WMRYPPTVII
PHQMMYAPPP FPPYHQYPNH HHLHHQSRGN KHQNAFNGEN KTIWVGDLHH WMDEAYLNSS
FASGDEREIV SVKVIRNKNN GLSEGYGFVE FESHDVADKV LREFNGTTMP NTDQPFRLNW
ASFSTGEKRL ENNGPDLSIF VGDLSPDVSD NLLHETFSEK YPSVKAAKVV LDANTGRSKG
YGFVRFGDEN ERTKAMTEMN GVKCSSRAMR IGPATPRKTN GYQQQGGYMP NGTLTRPEGD
IMNTTIFVGG LDSSVTDEDL KQPFNEFGEI VSVKIPVGKG CGFVQFVNRP NAEEALEKLN
GTVIGKQTVR LSWGRNPANK QPRDKYGNQW VDPYYGGQFY NGYGYMVPQP DPRMYPAAPY
YPMYGGHQQQ VS
