PRP4L_ARATH
ID PRP4L_ARATH Reviewed; 554 AA.
AC O22212; Q0WNB5; Q7GAP3; Q7Y1Z3;
DT 15-JUL-1998, integrated into UniProtKB/Swiss-Prot.
DT 01-JAN-1998, sequence version 1.
DT 25-MAY-2022, entry version 145.
DE RecName: Full=U4/U6 small nuclear ribonucleoprotein PRP4-like protein {ECO:0000305};
DE AltName: Full=Protein EMBRYO DEFECTIVE 2776 {ECO:0000305};
DE AltName: Full=Protein LACHESIS {ECO:0000303|PubMed:17326723};
GN Name=LIS {ECO:0000303|PubMed:17326723}; Synonyms=EMB2776 {ECO:0000305};
GN OrderedLocusNames=At2g41500; ORFNames=T26J13.9, T32G6.2;
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=10617197; DOI=10.1038/45471;
RA Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D.,
RA Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V.,
RA Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S.,
RA Cronin L.A., Shen M., Pai G., Van Aken S., Umayam L., Tallon L.J.,
RA Gill J.E., Adams M.D., Carrera A.J., Creasy T.H., Goodman H.M.,
RA Somerville C.R., Copenhaver G.P., Preuss D., Nierman W.C., White O.,
RA Eisen J.A., Salzberg S.L., Fraser C.M., Venter J.C.;
RT "Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.";
RL Nature 402:761-768(1999).
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].
RC STRAIN=cv. Columbia;
RA Cheuk R.F., Chen H., Kim C.J., Shinn P., Ecker J.R.;
RT "Arabidopsis ORF clones.";
RL Submitted (FEB-2005) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RA Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A.,
RA Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y.,
RA Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.,
RA Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y.,
RA Shinozaki K.;
RT "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs.";
RL Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP FUNCTION, DEVELOPMENTAL STAGE, AND DISRUPTION PHENOTYPE.
RX PubMed=17326723; DOI=10.1371/journal.pbio.0050047;
RA Gross-Hardt R., Kaegi C., Baumann N., Moore J.M., Baskar R., Gagliano W.B.,
RA Juergens G., Grossniklaus U.;
RT "LACHESIS restricts gametic cell fate in the female gametophyte of
RT Arabidopsis.";
RL PLoS Biol. 5:E47-E47(2007).
RN [7]
RP SUBCELLULAR LOCATION.
RX PubMed=18702672; DOI=10.1111/j.1365-313x.2008.03650.x;
RA Moll C., von Lyncker L., Zimmermann S., Kaegi C., Baumann N., Twell D.,
RA Grossniklaus U., Gross-Hardt R.;
RT "CLO/GFA1 and ATO are novel regulators of gametic cell fate in plants.";
RL Plant J. 56:913-921(2008).
RN [8]
RP FUNCTION, AND DEVELOPMENTAL STAGE.
RX PubMed=22190635; DOI=10.1242/dev.075234;
RA Voelz R., von Lyncker L., Baumann N., Dresselhaus T., Sprunck S.,
RA Gross-Hardt R.;
RT "LACHESIS-dependent egg-cell signaling regulates the development of female
RT gametophytic cells.";
RL Development 139:498-502(2012).
CC -!- FUNCTION: Participates in pre-mRNA splicing. Part of the U4/U5/U6 tri-
CC snRNP complex, one of the building blocks of the spliceosome (By
CC similarity). Essential for reproduction. In female gametophyte, is
CC necessary for the egg cell and central cell fate determination and
CC hence reproductive success. Involved in a mechanism that prevents
CC accessory cells from adopting gametic cell fate (PubMed:17326723).
CC Modulates egg cell signaling center that regulates the development of
CC all female gametophytic cells (PubMed:22190635).
CC {ECO:0000250|UniProtKB:O43172, ECO:0000269|PubMed:17326723,
CC ECO:0000269|PubMed:22190635}.
CC -!- SUBCELLULAR LOCATION: Nucleus speckle {ECO:0000269|PubMed:18702672}.
CC Note=Colocalizes with CLO. {ECO:0000269|PubMed:18702672}.
CC -!- DEVELOPMENTAL STAGE: During female gametophyte development,
CC preferentially expressed in the gametic cells.
CC {ECO:0000269|PubMed:17326723, ECO:0000269|PubMed:22190635}.
CC -!- DISRUPTION PHENOTYPE: Gametophytic lethality due to female gametophyte
CC defect, when homozygous. {ECO:0000269|PubMed:17326723}.
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DR EMBL; AC002510; AAB84332.1; -; Genomic_DNA.
DR EMBL; AC004625; AAM14969.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC09991.1; -; Genomic_DNA.
DR EMBL; CP002685; ANM62834.1; -; Genomic_DNA.
DR EMBL; BT008700; AAP40506.1; -; mRNA.
DR EMBL; BT020589; AAW80862.1; -; mRNA.
DR EMBL; AK229530; BAF01385.1; -; mRNA.
DR PIR; T00806; T02445.
DR RefSeq; NP_001324961.1; NM_001336916.1.
DR RefSeq; NP_181681.1; NM_129713.3.
DR AlphaFoldDB; O22212; -.
DR SMR; O22212; -.
DR BioGRID; 4085; 9.
DR STRING; 3702.AT2G41500.1; -.
DR iPTMnet; O22212; -.
DR MetOSite; O22212; -.
DR PaxDb; O22212; -.
DR PRIDE; O22212; -.
DR ProteomicsDB; 226219; -.
DR EnsemblPlants; AT2G41500.1; AT2G41500.1; AT2G41500.
DR EnsemblPlants; AT2G41500.2; AT2G41500.2; AT2G41500.
DR GeneID; 818748; -.
DR Gramene; AT2G41500.1; AT2G41500.1; AT2G41500.
DR Gramene; AT2G41500.2; AT2G41500.2; AT2G41500.
DR KEGG; ath:AT2G41500; -.
DR Araport; AT2G41500; -.
DR TAIR; locus:2060560; AT2G41500.
DR eggNOG; KOG0272; Eukaryota.
DR HOGENOM; CLU_000288_57_20_1; -.
DR InParanoid; O22212; -.
DR OMA; LNEPICY; -.
DR OrthoDB; 1076587at2759; -.
DR PhylomeDB; O22212; -.
DR PRO; PR:O22212; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; O22212; baseline and differential.
DR Genevisible; O22212; AT.
DR GO; GO:0016607; C:nuclear speck; IDA:TAIR.
DR GO; GO:0005681; C:spliceosomal complex; ISS:TAIR.
DR GO; GO:0046540; C:U4/U6 x U5 tri-snRNP complex; IBA:GO_Central.
DR GO; GO:0030621; F:U4 snRNA binding; IBA:GO_Central.
DR GO; GO:0017070; F:U6 snRNA binding; IBA:GO_Central.
DR GO; GO:0001709; P:cell fate determination; IMP:TAIR.
DR GO; GO:0007267; P:cell-cell signaling; IMP:TAIR.
DR GO; GO:0009553; P:embryo sac development; IMP:TAIR.
DR GO; GO:0009560; P:embryo sac egg cell differentiation; IMP:TAIR.
DR GO; GO:0000398; P:mRNA splicing, via spliceosome; ISS:TAIR.
DR Gene3D; 2.130.10.10; -; 2.
DR Gene3D; 4.10.280.110; -; 1.
DR InterPro; IPR020472; G-protein_beta_WD-40_rep.
DR InterPro; IPR014906; PRP4-like.
DR InterPro; IPR036285; PRP4-like_sf.
DR InterPro; IPR015943; WD40/YVTN_repeat-like_dom_sf.
DR InterPro; IPR001680; WD40_repeat.
DR InterPro; IPR019775; WD40_repeat_CS.
DR InterPro; IPR036322; WD40_repeat_dom_sf.
DR Pfam; PF08799; PRP4; 1.
DR Pfam; PF00400; WD40; 5.
DR PRINTS; PR00320; GPROTEINBRPT.
DR SMART; SM00500; SFM; 1.
DR SMART; SM00320; WD40; 7.
DR SUPFAM; SSF158230; SSF158230; 1.
DR SUPFAM; SSF50978; SSF50978; 1.
DR PROSITE; PS00678; WD_REPEATS_1; 3.
DR PROSITE; PS50082; WD_REPEATS_2; 6.
DR PROSITE; PS50294; WD_REPEATS_REGION; 1.
PE 2: Evidence at transcript level;
KW mRNA processing; mRNA splicing; Nucleus; Reference proteome; Repeat;
KW Spliceosome; WD repeat.
FT CHAIN 1..554
FT /note="U4/U6 small nuclear ribonucleoprotein PRP4-like
FT protein"
FT /id="PRO_0000051153"
FT REPEAT 253..292
FT /note="WD 1"
FT REPEAT 296..335
FT /note="WD 2"
FT REPEAT 337..376
FT /note="WD 3"
FT REPEAT 379..418
FT /note="WD 4"
FT REPEAT 421..460
FT /note="WD 5"
FT REPEAT 463..503
FT /note="WD 6"
FT REPEAT 506..545
FT /note="WD 7"
FT REGION 48..99
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 48..64
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 78..99
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 428
FT /note="S -> P (in Ref. 3; AAP40506 and 5; BAF01385)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 554 AA; 61842 MW; 3DAF733FCEA97CBD CRC64;
MEPNKDDNVS LAATAQISAP PVLQDASSLP GFSAIPPVVP PSFPPPMAPI PMMPHPPVAR
PPTFRPPVSQ NGGVKTSDSD SESDDEHIEI SEESKQVRER QEKALQDLLV KRRAAAMAVP
TNDKAVRDRL RRLGEPITLF GEQEMERRAR LTQLLTRYDI NGQLDKLVKD HEEDVTPKEE
VDDEVLEYPF FTEGPKELRE ARIEIAKFSV KRAAVRIQRA KRRRDDPDED MDAETKWALK
HAKHMALDCS NFGDDRPLTG CSFSRDGKIL ATCSLSGVTK LWEMPQVTNT IAVLKDHKER
ATDVVFSPVD DCLATASADR TAKLWKTDGT LLQTFEGHLD RLARVAFHPS GKYLGTTSYD
KTWRLWDINT GAELLLQEGH SRSVYGIAFQ QDGALAASCG LDSLARVWDL RTGRSILVFQ
GHIKPVFSVN FSPNGYHLAS GGEDNQCRIW DLRMRKSLYI IPAHANLVSQ VKYEPQEGYF
LATASYDMKV NIWSGRDFSL VKSLAGHESK VASLDITADS SCIATVSHDR TIKLWTSSGN
DDEDEEKETM DIDL
