SMD3A_ARATH
ID SMD3A_ARATH Reviewed; 128 AA.
AC Q9S7E6;
DT 27-MAY-2015, integrated into UniProtKB/Swiss-Prot.
DT 01-MAY-2000, sequence version 1.
DT 25-MAY-2022, entry version 131.
DE RecName: Full=Small nuclear ribonucleoprotein SmD3a {ECO:0000305};
DE Short=SmD3-a {ECO:0000303|PubMed:21421416};
DE AltName: Full=snRNP core protein D3-a {ECO:0000305};
GN Name=SMD3A {ECO:0000303|PubMed:21421416};
GN OrderedLocusNames=At1g76300 {ECO:0000312|Araport:AT1G76300};
GN ORFNames=F15M4.20 {ECO:0000312|EMBL:AAF16670.1},
GN T23E18.23 {ECO:0000312|EMBL:AAF17631.1};
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].
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].
RA Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
RA Feldmann K.A.;
RT "Full-length cDNA from Arabidopsis thaliana.";
RL Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP FUNCTION, TISSUE SPECIFICITY, AND DISRUPTION PHENOTYPE.
RX PubMed=21421416; DOI=10.1016/j.plantsci.2011.01.011;
RA Swaraz A.M., Park Y.D., Hur Y.;
RT "Knock-out mutations of Arabidopsis SmD3-b induce pleotropic phenotypes
RT through altered transcript splicing.";
RL Plant Sci. 180:661-671(2011).
CC -!- FUNCTION: Core component of the spliceosomal U1, U2, U4 and U5 small
CC nuclear ribonucleoproteins (snRNPs), the building blocks of the
CC spliceosome (By similarity). May play a minor role in the splicing of
CC cellular pre-mRNAs (PubMed:21421416). {ECO:0000250|UniProtKB:P62318,
CC ECO:0000269|PubMed:21421416}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm, cytosol
CC {ECO:0000250|UniProtKB:P62318}. Nucleus {ECO:0000250|UniProtKB:P62318}.
CC Note=SMN-mediated assembly into core snRNPs occurs in the cytosol
CC before SMN-mediated transport to the nucleus to be included in
CC spliceosomes. {ECO:0000250|UniProtKB:P62318}.
CC -!- TISSUE SPECIFICITY: Expressed in young seedlings, roots, leaves,
CC flowers and immature siliques. {ECO:0000269|PubMed:21421416}.
CC -!- DISRUPTION PHENOTYPE: No visible phenotype under normal growth
CC conditions, but the double mutants smd3-a and smd3-b display embryonic
CC lethality. {ECO:0000269|PubMed:21421416}.
CC -!- SIMILARITY: Belongs to the snRNP core protein family. {ECO:0000305}.
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DR EMBL; AC009978; AAF17631.1; -; Genomic_DNA.
DR EMBL; AC012394; AAF16670.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE35822.1; -; Genomic_DNA.
DR EMBL; AF380651; AAK55732.1; -; mRNA.
DR EMBL; AY054149; AAL06810.1; -; mRNA.
DR EMBL; AY087251; AAM64807.1; -; mRNA.
DR PIR; E96790; E96790.
DR RefSeq; NP_177757.1; NM_106280.4.
DR AlphaFoldDB; Q9S7E6; -.
DR SMR; Q9S7E6; -.
DR IntAct; Q9S7E6; 1.
DR STRING; 3702.AT1G76300.1; -.
DR PaxDb; Q9S7E6; -.
DR PRIDE; Q9S7E6; -.
DR ProteomicsDB; 228444; -.
DR EnsemblPlants; AT1G76300.1; AT1G76300.1; AT1G76300.
DR GeneID; 843963; -.
DR Gramene; AT1G76300.1; AT1G76300.1; AT1G76300.
DR KEGG; ath:AT1G76300; -.
DR Araport; AT1G76300; -.
DR TAIR; locus:2014589; AT1G76300.
DR eggNOG; KOG3172; Eukaryota.
DR HOGENOM; CLU_099537_1_0_1; -.
DR InParanoid; Q9S7E6; -.
DR OMA; SEDNWNC; -.
DR OrthoDB; 1584810at2759; -.
DR PhylomeDB; Q9S7E6; -.
DR PRO; PR:Q9S7E6; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q9S7E6; baseline and differential.
DR Genevisible; Q9S7E6; AT.
DR GO; GO:0071013; C:catalytic step 2 spliceosome; IBA:GO_Central.
DR GO; GO:0000243; C:commitment complex; IBA:GO_Central.
DR GO; GO:0005829; C:cytosol; IEA:UniProtKB-SubCell.
DR GO; GO:0016604; C:nuclear body; IDA:TAIR.
DR GO; GO:0005730; C:nucleolus; HDA:TAIR.
DR GO; GO:0005634; C:nucleus; HDA:TAIR.
DR GO; GO:0034715; C:pICln-Sm protein complex; IBA:GO_Central.
DR GO; GO:0071011; C:precatalytic spliceosome; IBA:GO_Central.
DR GO; GO:0034719; C:SMN-Sm protein complex; IBA:GO_Central.
DR GO; GO:0097526; C:spliceosomal tri-snRNP complex; IBA:GO_Central.
DR GO; GO:0005685; C:U1 snRNP; IBA:GO_Central.
DR GO; GO:0005689; C:U12-type spliceosomal complex; IBA:GO_Central.
DR GO; GO:0005686; C:U2 snRNP; IBA:GO_Central.
DR GO; GO:0005687; C:U4 snRNP; IBA:GO_Central.
DR GO; GO:0005682; C:U5 snRNP; IBA:GO_Central.
DR GO; GO:0003723; F:RNA binding; IBA:GO_Central.
DR GO; GO:0000398; P:mRNA splicing, via spliceosome; IMP:UniProtKB.
DR GO; GO:0000387; P:spliceosomal snRNP assembly; IBA:GO_Central.
DR CDD; cd01721; Sm_D3; 1.
DR InterPro; IPR027141; LSm4/Sm_D1/D3.
DR InterPro; IPR001163; LSM_dom_euk/arc.
DR InterPro; IPR010920; LSM_dom_sf.
DR InterPro; IPR034099; SmD3.
DR PANTHER; PTHR23338; PTHR23338; 1.
DR Pfam; PF01423; LSM; 1.
DR SMART; SM00651; Sm; 1.
DR SUPFAM; SSF50182; SSF50182; 1.
PE 2: Evidence at transcript level;
KW Cytoplasm; mRNA processing; mRNA splicing; Nucleus; Reference proteome;
KW Ribonucleoprotein; RNA-binding; Spliceosome.
FT CHAIN 1..128
FT /note="Small nuclear ribonucleoprotein SmD3a"
FT /id="PRO_0000433109"
FT REGION 90..128
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 128 AA; 13812 MW; A0E18CB0CFD40C14 CRC64;
MSRSLGIPVK LLHESSGHIV SVEMKSGELY RGSMIECEDN WNCQLENITY TAKDGKVSQL
EHVFIRGSLV RFLVIPDMLK NAPMFKDVRG KGKSASLGVG RGRGAAMRAK GTGRGTGGGR
GAVPPVRR
