CLV3_ARATH
ID CLV3_ARATH Reviewed; 96 AA.
AC Q9XF04; Q84WX8; Q84WX9; Q9XIN2;
DT 24-JAN-2001, integrated into UniProtKB/Swiss-Prot.
DT 20-DEC-2005, sequence version 2.
DT 03-AUG-2022, entry version 131.
DE RecName: Full=Protein CLAVATA 3 {ECO:0000303|PubMed:10082464};
DE Contains:
DE RecName: Full=MCLV3 {ECO:0000303|PubMed:10082464};
DE Flags: Precursor;
GN Name=CLV3 {ECO:0000303|PubMed:10082464};
GN OrderedLocusNames=At2g27250 {ECO:0000312|Araport:AT2G27250};
GN ORFNames=F12K2.17 {ECO:0000312|EMBL:AAD42004.1};
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 [GENOMIC DNA] (ISOFORM 1).
RC STRAIN=cv. Landsberg erecta;
RX PubMed=10082464; DOI=10.1126/science.283.5409.1911;
RA Fletcher J.C., Brand U., Running M.P., Simon R., Meyerowitz E.M.;
RT "Signaling of cell fate decisions by CLAVATA3 in Arabidopsis shoot
RT meristems.";
RL Science 283:1911-1914(1999).
RN [2]
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 [3]
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 [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 2 AND 3).
RC STRAIN=cv. Columbia;
RX PubMed=16244158; DOI=10.1104/pp.105.063479;
RA Xiao Y.-L., Smith S.R., Ishmael N., Redman J.C., Kumar N., Monaghan E.L.,
RA Ayele M., Haas B.J., Wu H.C., Town C.D.;
RT "Analysis of the cDNAs of hypothetical genes on Arabidopsis chromosome 2
RT reveals numerous transcript variants.";
RL Plant Physiol. 139:1323-1337(2005).
RN [5]
RP GENE FAMILY, AND NOMENCLATURE.
RX PubMed=11457943; DOI=10.1104/pp.126.3.939;
RA Cock J.M., McCormick S.;
RT "A large family of genes that share homology with CLAVATA3.";
RL Plant Physiol. 126:939-942(2001).
RN [6]
RP FUNCTION.
RX PubMed=16055633; DOI=10.1105/tpc.105.034009;
RA Fiers M., Golemiec E., Xu J., van der Geest L., Heidstra R., Stiekema W.,
RA Liu C.-M.;
RT "The 14-amino acid CLV3, CLE19, and CLE40 peptides trigger consumption of
RT the root meristem in Arabidopsis through a CLAVATA2-dependent pathway.";
RL Plant Cell 17:2542-2553(2005).
RN [7]
RP FUNCTION, AND PROTEOLYTIC PROCESSING OF MCLV3.
RX PubMed=16407446; DOI=10.1104/pp.105.072678;
RA Ni J., Clark S.E.;
RT "Evidence for functional conservation, sufficiency, and proteolytic
RT processing of the CLAVATA3 CLE domain.";
RL Plant Physiol. 140:726-733(2006).
RN [8]
RP FUNCTION, AND IDENTIFICATION OF MCLV3.
RX PubMed=16751438; DOI=10.1104/pp.106.080671;
RA Fiers M., Golemiec E., van der Schors R., van der Geest L., Li K.W.,
RA Stiekema W.J., Liu C.-M.;
RT "The CLAVATA3/ESR motif of CLAVATA3 is functionally independent from the
RT nonconserved flanking sequences.";
RL Plant Physiol. 141:1284-1292(2006).
RN [9]
RP FUNCTION, AND GENE FAMILY.
RX PubMed=16489133; DOI=10.1104/pp.105.075515;
RA Strabala T.J., O'donnell P.J., Smit A.-M., Ampomah-Dwamena C., Martin E.J.,
RA Netzler N., Nieuwenhuizen N.J., Quinn B.D., Foote H.C.C., Hudson K.R.;
RT "Gain-of-function phenotypes of many CLAVATA3/ESR genes, including four new
RT family members, correlate with tandem variations in the conserved
RT CLAVATA3/ESR domain.";
RL Plant Physiol. 140:1331-1344(2006).
RN [10]
RP FUNCTION.
RX PubMed=16902140; DOI=10.1126/science.1128436;
RA Ito Y., Nakanomyo I., Motose H., Iwamoto K., Sawa S., Dohmae N., Fukuda H.;
RT "Dodeca-CLE peptides as suppressors of plant stem cell differentiation.";
RL Science 313:842-845(2006).
RN [11]
RP IDENTIFICATION BY MASS SPECTROMETRY OF MCLV3, AND HYDROXYLATION AT PRO-73
RP AND PRO-76.
RX PubMed=16902141; DOI=10.1126/science.1128439;
RA Kondo T., Sawa S., Kinoshita A., Mizuno S., Kakimoto T., Fukuda H.,
RA Sakagami Y.;
RT "A plant peptide encoded by CLV3 identified by in situ MALDI-TOF MS
RT analysis.";
RL Science 313:845-848(2006).
RN [12]
RP FUNCTION.
RX PubMed=16603652; DOI=10.1105/tpc.105.040444;
RA Mueller R., Borghi L., Kwiatkowska D., Laufs P., Simon R.;
RT "Dynamic and compensatory responses of Arabidopsis shoot and floral
RT meristems to CLV3 signaling.";
RL Plant Cell 18:1188-1198(2006).
RN [13]
RP REVIEW.
RX PubMed=18034320; DOI=10.1007/s00018-007-7411-5;
RA Jun J.H., Fiume E., Fletcher J.C.;
RT "The CLE family of plant polypeptide signaling molecules.";
RL Cell. Mol. Life Sci. 65:743-755(2008).
RN [14]
RP REVIEW.
RX PubMed=18078779; DOI=10.1016/j.pbi.2007.10.010;
RA Mitchum M.G., Wang X., Davis E.L.;
RT "Diverse and conserved roles of CLE peptides.";
RL Curr. Opin. Plant Biol. 11:75-81(2008).
RN [15]
RP INTERACTION WITH CLV1.
RX PubMed=18202283; DOI=10.1126/science.1150083;
RA Ogawa M., Shinohara H., Sakagami Y., Matsubayashi Y.;
RT "Arabidopsis CLV3 peptide directly binds CLV1 ectodomain.";
RL Science 319:294-294(2008).
RN [16]
RP FUNCTION, IDENTIFICATION BY MASS SPECTROMETRY OF MCLV3, INTERACTION WITH
RP CLV1, GLYCOSYLATION AT PRO-76, HYDROXYLATION AT PRO-73 AND PRO-76, AND
RP SUBCELLULAR LOCATION.
RX PubMed=19525968; DOI=10.1038/nchembio.182;
RA Ohyama K., Shinohara H., Ogawa-Ohnishi M., Matsubayashi Y.;
RT "A glycopeptide regulating stem cell fate in Arabidopsis thaliana.";
RL Nat. Chem. Biol. 5:578-580(2009).
RN [17]
RP SUBUNIT.
RX PubMed=20697738; DOI=10.1007/s00425-010-1236-4;
RA Meng L., Feldman L.J.;
RT "CLE14/CLE20 peptides may interact with CLAVATA2/CORYNE receptor-like
RT kinases to irreversibly inhibit cell division in the root meristem of
RT Arabidopsis.";
RL Planta 232:1061-1074(2010).
RN [18]
RP INTERACTION WITH CLV2.
RX PubMed=20626648; DOI=10.1111/j.1365-313x.2010.04295.x;
RA Guo Y., Han L., Hymes M., Denver R., Clark S.E.;
RT "CLAVATA2 forms a distinct CLE-binding receptor complex regulating
RT Arabidopsis stem cell specification.";
RL Plant J. 63:889-900(2010).
RN [19]
RP FUNCTION.
RX PubMed=19933383; DOI=10.1104/pp.109.149930;
RA Bleckmann A., Weidtkamp-Peters S., Seidel C.A.M., Simon R.;
RT "Stem cell signaling in Arabidopsis requires CRN to localize CLV2 to the
RT plasma membrane.";
RL Plant Physiol. 152:166-176(2010).
RN [20]
RP REVIEW.
RX PubMed=20016993; DOI=10.1007/s00709-009-0095-y;
RA Wang G., Fiers M.;
RT "CLE peptide signaling during plant development.";
RL Protoplasma 240:33-43(2010).
CC -!- FUNCTION: Extracellular signal that regulates meristem maintenance.
CC Acts with CLV1 as a ligand-receptor pair in a signal transduction
CC pathway coordinating growth between adjacent meristematic regions and
CC controlling the balance between meristem cell proliferation and
CC differentiation.
CC -!- FUNCTION: [MCLV3]: The secreted peptide MCLV3 activates a signal
CC transduction cascade to restrict WUSCHEL (WUS) expression, inducing
CC shoot and root meristem consumption as cells differentiated into other
CC organs.
CC -!- SUBUNIT: Interacts with the extracellular leucine-rich repeat region of
CC CLV1 (PubMed:18202283, PubMed:19525968). Interacts with CLV2
CC (PubMed:20626648). CLV3-derived CLE peptides interacts with a
CC tetrameric complex made of two CLV2/CRN heterodimers (PubMed:20697738).
CC {ECO:0000269|PubMed:18202283, ECO:0000269|PubMed:19525968,
CC ECO:0000269|PubMed:20626648, ECO:0000269|PubMed:20697738}.
CC -!- SUBCELLULAR LOCATION: Secreted, extracellular space
CC {ECO:0000269|PubMed:19525968}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=3;
CC Name=1;
CC IsoId=Q9XF04-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q9XF04-2; Sequence=VSP_016629;
CC Name=3;
CC IsoId=Q9XF04-3; Sequence=VSP_016629, VSP_016630;
CC -!- TISSUE SPECIFICITY: First detected in heart stage embryos in a patch of
CC cells between the developing cotyledons. In vegetative and
CC inflorescence meristems, expressed in a small cone of cells at the
CC meristem apex.
CC -!- PTM: [MCLV3]: The MCLV3 peptide contains two hydroxyprolines, but
CC hydroxylation had no direct effect on MCLV3 activity.
CC {ECO:0000269|PubMed:16902141, ECO:0000269|PubMed:19525968}.
CC -!- PTM: [MCLV3]: The O-glycosylation (arabinosylation) of the
CC hydroxyproline P-76 enhances binding affinity of the MCLV3 peptide for
CC its receptor. {ECO:0000269|PubMed:19525968}.
CC -!- MASS SPECTROMETRY: [MCLV3]: Mass=1345.6; Method=MALDI; Note=MCLV3 with
CC hydroxyPro-73 and hydroxyPro-76.;
CC Evidence={ECO:0000269|PubMed:16902141};
CC -!- MISCELLANEOUS: His-81 seems to be essential for the activity of MCLV3.
CC -!- MISCELLANEOUS: [Isoform 2]: May be due to intron retention.
CC {ECO:0000305}.
CC -!- MISCELLANEOUS: [Isoform 3]: May be due to introns retention.
CC {ECO:0000305}.
CC -!- SIMILARITY: Belongs to the CLV3/ESR signal peptide family.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAD42004.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AF126009; AAD27620.1; -; Genomic_DNA.
DR EMBL; AC006233; AAD42004.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002685; AEC07963.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC07964.1; -; Genomic_DNA.
DR EMBL; AY219132; AAO37219.1; -; mRNA.
DR EMBL; AY219133; AAO37220.1; -; mRNA.
DR PIR; F84670; F84670.
DR RefSeq; NP_001118398.1; NM_001124926.2. [Q9XF04-1]
DR RefSeq; NP_973541.1; NM_201812.1. [Q9XF04-2]
DR AlphaFoldDB; Q9XF04; -.
DR BioGRID; 2619; 3.
DR STRING; 3702.AT2G27250.3; -.
DR PaxDb; Q9XF04; -.
DR PRIDE; Q9XF04; -.
DR EnsemblPlants; AT2G27250.2; AT2G27250.2; AT2G27250. [Q9XF04-2]
DR EnsemblPlants; AT2G27250.3; AT2G27250.3; AT2G27250. [Q9XF04-1]
DR GeneID; 817267; -.
DR Gramene; AT2G27250.2; AT2G27250.2; AT2G27250. [Q9XF04-2]
DR Gramene; AT2G27250.3; AT2G27250.3; AT2G27250. [Q9XF04-1]
DR KEGG; ath:AT2G27250; -.
DR Araport; AT2G27250; -.
DR TAIR; locus:2005502; AT2G27250.
DR eggNOG; ENOG502R373; Eukaryota.
DR HOGENOM; CLU_2430134_0_0_1; -.
DR InParanoid; Q9XF04; -.
DR OMA; MEREWVG; -.
DR OrthoDB; 1557780at2759; -.
DR PRO; PR:Q9XF04; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; Q9XF04; baseline and differential.
DR Genevisible; Q9XF04; AT.
DR GO; GO:0048046; C:apoplast; IDA:TAIR.
DR GO; GO:0005615; C:extracellular space; IEA:UniProtKB-SubCell.
DR GO; GO:0033612; F:receptor serine/threonine kinase binding; IPI:UniProtKB.
DR GO; GO:0045168; P:cell-cell signaling involved in cell fate commitment; IDA:UniProtKB.
DR GO; GO:0045087; P:innate immune response; IDA:TAIR.
DR GO; GO:0010074; P:maintenance of meristem identity; IMP:TAIR.
DR GO; GO:0048507; P:meristem development; IMP:TAIR.
DR GO; GO:0009934; P:regulation of meristem structural organization; IDA:TAIR.
DR InterPro; IPR039818; CLAVATA3.
DR InterPro; IPR044962; CLV3/ESR.
DR PANTHER; PTHR36349; PTHR36349; 1.
DR PANTHER; PTHR36349:SF2; PTHR36349:SF2; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Developmental protein; Differentiation; Glycoprotein;
KW Hydroxylation; Reference proteome; Secreted; Signal.
FT SIGNAL 1..21
FT /evidence="ECO:0000255"
FT CHAIN 22..96
FT /note="Protein CLAVATA 3"
FT /id="PRO_0000020949"
FT PEPTIDE 70..82
FT /note="MCLV3"
FT /evidence="ECO:0000250|UniProtKB:O49519"
FT /id="PRO_0000248161"
FT REGION 68..96
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 73
FT /note="Hydroxyproline"
FT /evidence="ECO:0000269|PubMed:16902141,
FT ECO:0000269|PubMed:19525968"
FT MOD_RES 76
FT /note="Hydroxyproline"
FT /evidence="ECO:0000269|PubMed:16902141,
FT ECO:0000269|PubMed:19525968"
FT CARBOHYD 76
FT /note="O-linked (Ara...) hydroxyproline"
FT /evidence="ECO:0000269|PubMed:19525968"
FT VAR_SEQ 1..22
FT /note="MDSKSFLLLLLLFCFLFLHDAS -> MDSYKSQHNFFLLFTISP (in
FT isoform 2 and isoform 3)"
FT /evidence="ECO:0000303|PubMed:16244158"
FT /id="VSP_016629"
FT VAR_SEQ 39..96
FT /note="MMMMKMESEWVGANGEAEKAKTKGLGLHEELRTVPSGPDPLHHHVNPPRQPR
FT NNFQLP -> VIFNLYSLRPLNIHVLCSCRCPVQFNNCFIALVVTRNICIYYYGVQNIV
FT KCCSIGR (in isoform 3)"
FT /evidence="ECO:0000303|PubMed:16244158"
FT /id="VSP_016630"
FT CONFLICT 7
FT /note="L -> V (in Ref. 1; AAD27620)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 96 AA; 10871 MW; 4F175F5CE2558DD5 CRC64;
MDSKSFLLLL LLFCFLFLHD ASDLTQAHAH VQGLSNRKMM MMKMESEWVG ANGEAEKAKT
KGLGLHEELR TVPSGPDPLH HHVNPPRQPR NNFQLP
