LSM1A_ARATH
ID LSM1A_ARATH Reviewed; 128 AA.
AC Q945P8; Q8LEW7; Q9LMB5;
DT 07-JAN-2015, integrated into UniProtKB/Swiss-Prot.
DT 01-DEC-2001, sequence version 1.
DT 03-AUG-2022, entry version 126.
DE RecName: Full=Sm-like protein LSM1A {ECO:0000305};
DE Short=AtLSM1a {ECO:0000303|PubMed:23620288};
GN Name=LSM1A {ECO:0000303|PubMed:23221597};
GN OrderedLocusNames=At1g19120 {ECO:0000312|Araport:AT1G19120};
GN ORFNames=F14D16.28 {ECO:0000312|EMBL:AAF79296.1};
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, SUBUNIT, INTERACTION WITH LSM2 AND LSM4, SUBCELLULAR LOCATION,
RP TISSUE SPECIFICITY, DISRUPTION PHENOTYPE, AND GENE FAMILY.
RX PubMed=23221597; DOI=10.1105/tpc.112.103697;
RA Perea-Resa C., Hernandez-Verdeja T., Lopez-Cobollo R.,
RA del Mar Castellano M., Salinas J.;
RT "LSM proteins provide accurate splicing and decay of selected transcripts
RT to ensure normal Arabidopsis development.";
RL Plant Cell 24:4930-4947(2012).
RN [6]
RP IDENTIFICATION BY MASS SPECTROMETRY, FUNCTION, SUBUNIT, SUBCELLULAR
RP LOCATION, TISSUE SPECIFICITY, AND DISRUPTION PHENOTYPE.
RX PubMed=23620288; DOI=10.1093/nar/gkt296;
RA Golisz A., Sikorski P.J., Kruszka K., Kufel J.;
RT "Arabidopsis thaliana LSM proteins function in mRNA splicing and
RT degradation.";
RL Nucleic Acids Res. 41:6232-6249(2013).
CC -!- FUNCTION: Component of the cytoplasmic LSM1-LSM7 complex which is
CC involved in mRNA degradation by promoting decapping and leading to
CC accurate 5'-3' mRNA decay. LSM1A and LSM1B are essential for the
CC formation of the cytoplasmic LSM1-LSM7 complex which regulates
CC developmental gene expression by the decapping of specific development-
CC related transcripts (PubMed:23221597, PubMed:23620288). Required for P-
CC body formation during heat stress (PubMed:23221597).
CC {ECO:0000269|PubMed:23221597, ECO:0000269|PubMed:23620288}.
CC -!- SUBUNIT: Component of the heptameric LSM1-LSM7 complex that forms a
CC seven-membered ring structure with a donut shape. The LSM subunits are
CC arranged in the order LSM1, LSM2, LSM3, LSM6, LSM5, LSM7 and LSM4
CC (PubMed:23221597, PubMed:23620288). LSM1A subunit interacts only with
CC its two neighboring subunits, LSM2 and LSM4 (PubMed:23221597).
CC {ECO:0000269|PubMed:23221597, ECO:0000269|PubMed:23620288}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000269|PubMed:23221597,
CC ECO:0000269|PubMed:23620288}. Cytoplasm, P-body
CC {ECO:0000269|PubMed:23221597}. Note=Translocates from cytosol to P-
CC bodies upon heat stress. {ECO:0000269|PubMed:23221597}.
CC -!- TISSUE SPECIFICITY: Expressed in roots, leaves, stems, flowers and
CC siliques. {ECO:0000269|PubMed:23221597, ECO:0000269|PubMed:23620288}.
CC -!- DISRUPTION PHENOTYPE: No visible phenotype under normal growth
CC conditions, but the double mutants lsm1a and lsm1b show severe
CC developmental alterations, such as delayed seed germination, reduced
CC root length, epinastic, chlorotic and small cotyledons, small and
CC serrated leaves, abnormal venation in cotyledons and leaves, dwarf
CC plants with early flowering, short siliques with reduced seed number
CC and small morphologically alterated seeds.
CC {ECO:0000269|PubMed:23221597, ECO:0000269|PubMed:23620288}.
CC -!- SIMILARITY: Belongs to the snRNP Sm proteins family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAF79296.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AC068602; AAF79296.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002684; AEE29807.1; -; Genomic_DNA.
DR EMBL; AF411792; AAL06482.1; -; mRNA.
DR EMBL; AY094024; AAM16180.1; -; mRNA.
DR EMBL; AY085185; AAM61736.1; -; mRNA.
DR RefSeq; NP_564072.1; NM_101770.2.
DR AlphaFoldDB; Q945P8; -.
DR SMR; Q945P8; -.
DR ComplexPortal; CPX-1308; LSM1-7-PAT1 complex, variant LSM1A-LSM3A-LSM6A-PAT1.
DR ComplexPortal; CPX-1345; LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6B-PAT1.
DR ComplexPortal; CPX-1346; LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6A-PAT1.
DR ComplexPortal; CPX-1351; LSM1-7-PAT1 complex, variant LSM1A-LSM3A-LSM6B-PAT1.
DR ComplexPortal; CPX-1391; LSM1-7-PAT1 complex, variant LSM1A-LSM3A-LSM6A-PAT1H1.
DR ComplexPortal; CPX-1392; LSM1-7-PAT1 complex, variant LSM1A-LSM3A-LSM6B-PAT1H1.
DR ComplexPortal; CPX-1393; LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6A-PAT1H1.
DR ComplexPortal; CPX-1394; LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6B-PAT1H1.
DR ComplexPortal; CPX-1399; LSM1-7-PAT1 complex, variant LSM1A-LSM3A-LSM6A-PAT1H2.
DR ComplexPortal; CPX-1400; LSM1-7-PAT1 complex, variant LSM1A-LSM3A-LSM6B-PAT1H2.
DR ComplexPortal; CPX-1401; LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6A-PAT1H2.
DR ComplexPortal; CPX-1402; LSM1-7-PAT1 complex, variant LSM1A-LSM3B-LSM6B-PAT1H2.
DR STRING; 3702.AT1G19120.1; -.
DR PaxDb; Q945P8; -.
DR PRIDE; Q945P8; -.
DR ProteomicsDB; 238680; -.
DR EnsemblPlants; AT1G19120.1; AT1G19120.1; AT1G19120.
DR GeneID; 838495; -.
DR Gramene; AT1G19120.1; AT1G19120.1; AT1G19120.
DR KEGG; ath:AT1G19120; -.
DR Araport; AT1G19120; -.
DR TAIR; locus:2011246; AT1G19120.
DR eggNOG; KOG1782; Eukaryota.
DR HOGENOM; CLU_076902_0_2_1; -.
DR InParanoid; Q945P8; -.
DR OrthoDB; 1508864at2759; -.
DR PhylomeDB; Q945P8; -.
DR PRO; PR:Q945P8; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q945P8; baseline and differential.
DR Genevisible; Q945P8; AT.
DR GO; GO:1990726; C:Lsm1-7-Pat1 complex; IBA:GO_Central.
DR GO; GO:0000932; C:P-body; IDA:TAIR.
DR GO; GO:0003723; F:RNA binding; IDA:TAIR.
DR GO; GO:0000339; F:RNA cap binding; IBA:GO_Central.
DR GO; GO:0009631; P:cold acclimation; IMP:TAIR.
DR GO; GO:0000290; P:deadenylation-dependent decapping of nuclear-transcribed mRNA; IBA:GO_Central.
DR GO; GO:0042538; P:hyperosmotic salinity response; IMP:TAIR.
DR GO; GO:0006397; P:mRNA processing; IGI:TAIR.
DR GO; GO:0009414; P:response to water deprivation; IMP:TAIR.
DR GO; GO:0016070; P:RNA metabolic process; IGI:TAIR.
DR CDD; cd01728; LSm1; 1.
DR InterPro; IPR034104; Lsm1.
DR InterPro; IPR001163; LSM_dom_euk/arc.
DR InterPro; IPR010920; LSM_dom_sf.
DR InterPro; IPR044642; PTHR15588.
DR PANTHER; PTHR15588; PTHR15588; 1.
DR Pfam; PF01423; LSM; 1.
DR SMART; SM00651; Sm; 1.
DR SUPFAM; SSF50182; SSF50182; 1.
PE 1: Evidence at protein level;
KW Cytoplasm; mRNA processing; Reference proteome; Ribonucleoprotein;
KW RNA-binding.
FT CHAIN 1..128
FT /note="Sm-like protein LSM1A"
FT /id="PRO_0000431641"
FT CONFLICT 17
FT /note="A -> P (in Ref. 4; AAM61736)"
FT /evidence="ECO:0000305"
FT CONFLICT 94
FT /note="V -> L (in Ref. 4; AAM61736)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 128 AA; 14662 MW; FCB27BD7D97BECEA CRC64;
MSWAAPDDIF FSTSLAAYLD KKLLVLLRDG RKLMGLLRSF DQFANAVLEE AYERVIVGDL
YCDIPLGLYI IRGENVVLIG ELDVEKEELP AHMVQVPEAE IKRAQKAEKE EMLLKGTMRK
RMEFLDLD
