RID3_ARATH
ID RID3_ARATH Reviewed; 438 AA.
AC Q9M3B4; Q8LBC4;
DT 24-JUL-2013, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2000, sequence version 1.
DT 03-AUG-2022, entry version 141.
DE RecName: Full=Protein ROOT INITIATION DEFECTIVE 3;
DE AltName: Full=Root initiation defective 3 protein;
DE AltName: Full=WD-40 repeat-containing protein RID3;
GN Name=RID3; OrderedLocusNames=At3g49180; ORFNames=F2K15.40;
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=11130713; DOI=10.1038/35048706;
RA Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B.,
RA Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M.,
RA Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V.,
RA Choisne N., Artiguenave F., Robert C., Brottier P., Wincker P.,
RA Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M.,
RA Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H.,
RA Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H.,
RA Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A.,
RA Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H.,
RA Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J.,
RA Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B.,
RA Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D.,
RA de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E.,
RA Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G.,
RA Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X.,
RA Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M.,
RA Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B.,
RA Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J.,
RA Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C.,
RA Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y.,
RA Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K.,
RA Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A.,
RA Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T.,
RA Watanabe A., Yamada M., Yasuda M., Tabata S.;
RT "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana.";
RL Nature 408:820-822(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].
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 [5]
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 [6]
RP MUTANT RID3.
RX PubMed=14522871; DOI=10.1242/dev.00794;
RA Konishi M., Sugiyama M.;
RT "Genetic analysis of adventitious root formation with a novel series of
RT temperature-sensitive mutants of Arabidopsis thaliana.";
RL Development 130:5637-5647(2003).
RN [7]
RP FUNCTION, AND MUTAGENESIS OF ALA-265.
RX PubMed=19054368; DOI=10.1111/j.1365-313x.2008.03750.x;
RA Tamaki H., Konishi M., Daimon Y., Aida M., Tasaka M., Sugiyama M.;
RT "Identification of novel meristem factors involved in shoot regeneration
RT through the analysis of temperature-sensitive mutants of Arabidopsis.";
RL Plant J. 57:1027-1039(2009).
CC -!- FUNCTION: Involved in meristem development. Acts as negative regulator
CC of the CUC-STM pathway in shoot apical meristem (SAM) neo-formation.
CC {ECO:0000269|PubMed:19054368}.
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DR EMBL; AL132956; CAB66397.1; -; Genomic_DNA.
DR EMBL; CP002686; AEE78508.1; -; Genomic_DNA.
DR EMBL; BT004624; AAO42870.1; -; mRNA.
DR EMBL; AK227986; BAE99952.1; -; mRNA.
DR EMBL; AY087296; AAM64848.1; -; mRNA.
DR PIR; T45823; T45823.
DR RefSeq; NP_190487.1; NM_114777.4.
DR AlphaFoldDB; Q9M3B4; -.
DR SMR; Q9M3B4; -.
DR BioGRID; 9397; 10.
DR IntAct; Q9M3B4; 2.
DR STRING; 3702.AT3G49180.1; -.
DR PaxDb; Q9M3B4; -.
DR PRIDE; Q9M3B4; -.
DR ProteomicsDB; 236978; -.
DR DNASU; 824079; -.
DR EnsemblPlants; AT3G49180.1; AT3G49180.1; AT3G49180.
DR GeneID; 824079; -.
DR Gramene; AT3G49180.1; AT3G49180.1; AT3G49180.
DR KEGG; ath:AT3G49180; -.
DR Araport; AT3G49180; -.
DR TAIR; locus:2082891; AT3G49180.
DR eggNOG; KOG0646; Eukaryota.
DR HOGENOM; CLU_029749_3_0_1; -.
DR InParanoid; Q9M3B4; -.
DR OMA; VNARIYT; -.
DR OrthoDB; 747023at2759; -.
DR PhylomeDB; Q9M3B4; -.
DR PRO; PR:Q9M3B4; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q9M3B4; baseline and differential.
DR Genevisible; Q9M3B4; AT.
DR GO; GO:0080008; C:Cul4-RING E3 ubiquitin ligase complex; ISS:TAIR.
DR GO; GO:0005656; C:nuclear pre-replicative complex; IBA:GO_Central.
DR GO; GO:0097344; C:Rix1 complex; IBA:GO_Central.
DR GO; GO:0006261; P:DNA-templated DNA replication; IBA:GO_Central.
DR GO; GO:1902184; P:negative regulation of shoot apical meristem development; IMP:UniProtKB.
DR GO; GO:0006364; P:rRNA processing; IBA:GO_Central.
DR Gene3D; 2.130.10.10; -; 2.
DR InterPro; IPR020472; G-protein_beta_WD-40_rep.
DR InterPro; IPR015943; WD40/YVTN_repeat-like_dom_sf.
DR InterPro; IPR001680; WD40_repeat.
DR InterPro; IPR036322; WD40_repeat_dom_sf.
DR InterPro; IPR045227; WDR18/Ipi3/RID3.
DR PANTHER; PTHR18763; PTHR18763; 1.
DR Pfam; PF00400; WD40; 3.
DR PRINTS; PR00320; GPROTEINBRPT.
DR SMART; SM00320; WD40; 5.
DR SUPFAM; SSF50978; SSF50978; 1.
DR PROSITE; PS00678; WD_REPEATS_1; 1.
DR PROSITE; PS50082; WD_REPEATS_2; 3.
DR PROSITE; PS50294; WD_REPEATS_REGION; 1.
PE 1: Evidence at protein level;
KW Coiled coil; Reference proteome; Repeat; WD repeat.
FT CHAIN 1..438
FT /note="Protein ROOT INITIATION DEFECTIVE 3"
FT /id="PRO_0000423020"
FT REPEAT 36..74
FT /note="WD 1"
FT REPEAT 76..115
FT /note="WD 2"
FT REPEAT 118..157
FT /note="WD 3"
FT REPEAT 171..212
FT /note="WD 4"
FT REPEAT 214..253
FT /note="WD 5"
FT REPEAT 261..300
FT /note="WD 6"
FT COILED 394..434
FT /evidence="ECO:0000255"
FT MUTAGEN 265
FT /note="A->V: In rid3; impaired in adventitious root
FT formation and shoot regeneration at the restrictive
FT temperature of 28 degrees Celsius."
FT /evidence="ECO:0000269|PubMed:19054368"
FT CONFLICT 310
FT /note="G -> C (in Ref. 5; AAM64848)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 438 AA; 48150 MW; 478588977C0C704B CRC64;
MEITVIASSS IDEGIGSWDL KTGTEQLQFK PCASPAHGLT AVGEKFLASS QLSARNTSGS
IFYWSWTKPQ AEVKSYPVEP IKALAANNEG TYLVGGGISG DIYLWEVATG KLLKKWHGHY
RSVTCLVFSG DDSLLVSGSQ DGSIRVWSLI RLFDDFQRQQ GNTLYEHNFN EHTMSVTDIV
IDYGGCNAVI ISSSEDRTCK VWSLSRGKLL KNIIFPSVIN ALALDPGGCV FYAGARDSKI
YIGAINATSE YGTQVLGSVS EKGKAITCLA YCADGNLLIS GSEDGVVCVW DPKSLRHVRT
LIHAKGSRKG PVNNIQIVRK TIVANSNKTQ VSWKSRGALI PPPLEKYERP VEDTMDGIVT
VDPPPFSDVP VYSSFLSADL IDEQVKELQQ QGSAATEMEM ERLKLEYKRS LQMNEQWQKN
YENLLQVVME EEQIGGTN
