YAB3_ARATH
ID YAB3_ARATH Reviewed; 240 AA.
AC Q9XFB1; O81319;
DT 22-NOV-2005, integrated into UniProtKB/Swiss-Prot.
DT 01-NOV-1999, sequence version 1.
DT 03-AUG-2022, entry version 133.
DE RecName: Full=Axial regulator YABBY 3;
GN Name=YAB3; OrderedLocusNames=At4g00180; ORFNames=F6N15.22;
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 [MRNA], FUNCTION, DEVELOPMENTAL STAGE, AND TISSUE
RP SPECIFICITY.
RX PubMed=10457020; DOI=10.1242/dev.126.18.4117;
RA Siegfried K.R., Eshed Y., Baum S.F., Otsuga D., Drews G.N., Bowman J.L.;
RT "Members of the YABBY gene family specify abaxial cell fate in
RT Arabidopsis.";
RL Development 126:4117-4128(1999).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617198; DOI=10.1038/47134;
RA Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T.,
RA Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B.,
RA Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M.,
RA de Simone V., Obermaier B., Mache R., Mueller M., Kreis M., Delseny M.,
RA Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D.,
RA Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J.,
RA Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B.,
RA Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J.,
RA Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R.,
RA Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M.,
RA Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P.,
RA Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S.,
RA Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C.,
RA Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J.,
RA Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S.,
RA Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A.,
RA Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M.,
RA Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M.,
RA Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D.,
RA Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E.,
RA Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S.,
RA Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R.,
RA Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M.,
RA Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E.,
RA Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P.,
RA Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K.,
RA Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K.,
RA de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K.,
RA Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M.,
RA Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G.,
RA Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K.,
RA Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K.,
RA Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W.,
RA Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H.,
RA Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B.,
RA Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J.,
RA Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K.,
RA O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N.,
RA Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A.,
RA Martienssen R., McCombie W.R.;
RT "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana.";
RL Nature 402:769-777(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].
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 [5]
RP GENE FAMILY, AND NOMENCLATURE.
RX PubMed=10679447; DOI=10.1016/s1369-5266(99)00035-7;
RA Bowman J.L.;
RT "The YABBY gene family and abaxial cell fate.";
RL Curr. Opin. Plant Biol. 3:17-22(2000).
RN [6]
RP FUNCTION, AND TISSUE SPECIFICITY.
RX PubMed=12417699; DOI=10.1105/tpc.004911;
RA Kumaran M.K., Bowman J.L., Sundaresan V.;
RT "YABBY polarity genes mediate the repression of KNOX homeobox genes in
RT Arabidopsis.";
RL Plant Cell 14:2761-2770(2002).
RN [7]
RP INTERACTION WITH SPL/NZZ.
RX PubMed=15299139; DOI=10.1104/pp.104.040154;
RA Sieber P., Petrascheck M., Barberis A., Schneitz K.;
RT "Organ polarity in Arabidopsis. NOZZLE physically interacts with members of
RT the YABBY family.";
RL Plant Physiol. 135:2172-2185(2004).
RN [8]
RP FUNCTION, DISRUPTION PHENOTYPE, AND INTERACTION WITH LUG AND LUH.
RX PubMed=19837869; DOI=10.1105/tpc.109.070458;
RA Stahle M.I., Kuehlich J., Staron L., von Arnim A.G., Golz J.F.;
RT "YABBYs and the transcriptional corepressors LEUNIG and LEUNIG_HOMOLOG
RT maintain leaf polarity and meristem activity in Arabidopsis.";
RL Plant Cell 21:3105-3118(2009).
RN [9]
RP INTERACTION WITH SPL/NZZ AND SPEAR2.
RX PubMed=25527103; DOI=10.1016/j.jgg.2014.08.009;
RA Chen G.H., Sun J.Y., Liu M., Liu J., Yang W.C.;
RT "SPOROCYTELESS is a novel embryophyte-specific transcription repressor that
RT interacts with TPL and TCP proteins in Arabidopsis.";
RL J. Genet. Genomics 41:617-625(2014).
CC -!- FUNCTION: Involved in the abaxial cell fate determination during
CC embryogenesis and organogenesis. Regulates the initiation of embryonic
CC shoot apical meristem (SAM) development (PubMed:10457020,
CC PubMed:12417699, PubMed:19837869). Contributes to the repression of
CC KNOX genes (STM, KNAT1/BP and KNAT2) to avoid ectopic meristems. Binds
CC DNA without sequence specificity (PubMed:10457020, PubMed:12417699).
CC {ECO:0000269|PubMed:10457020, ECO:0000269|PubMed:12417699,
CC ECO:0000269|PubMed:19837869}.
CC -!- SUBUNIT: Interacts with SPL/NZZ (PubMed:15299139, PubMed:25527103).
CC Interacts with SPEAR2 (PubMed:25527103). Binds to LUG and LUH; these
CC complexes promote adaxial cell identity in leaves as well as embryonic
CC shoot apical meristem (SAM) initiation and postembryonic SAM
CC maintenance (PubMed:19837869). {ECO:0000269|PubMed:15299139,
CC ECO:0000269|PubMed:19837869, ECO:0000269|PubMed:25527103}.
CC -!- INTERACTION:
CC Q9XFB1; Q9LEZ3: BIM1; NbExp=3; IntAct=EBI-1115657, EBI-617095;
CC Q9XFB1; Q9FDW1: MYB44; NbExp=3; IntAct=EBI-1115657, EBI-15192813;
CC Q9XFB1; O81836: SPL; NbExp=3; IntAct=EBI-1115657, EBI-1113588;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=1;
CC Comment=A number of isoforms are produced. According to EST
CC sequences.;
CC Name=1;
CC IsoId=Q9XFB1-1; Sequence=Displayed;
CC -!- TISSUE SPECIFICITY: Expressed in abaxial regions of lateral aerial
CC organ primordia leading to cotyledons, leaves, flower meristems,
CC sepals, petals, stamen and carpels, but not in roots.
CC {ECO:0000269|PubMed:10457020, ECO:0000269|PubMed:12417699}.
CC -!- DEVELOPMENTAL STAGE: Expressed in subepidermal cells of anlagen
CC regions, then in abaxial part of primordia and finally in
CC differentiating organs. Levels decrease in differentiated organs. In
CC embryo the expression starts during the heart stage in the cotyledon
CC anlagen. Later, expression expands to abaxial domain of the cotyledon
CC primordia and decrease as the embryo matures. In stamen, expression
CC restricted to the abaxial region differentiating into the connective.
CC In gynoecium, expressed in the abaxial cell layers differentiating into
CC the valves. {ECO:0000269|PubMed:10457020}.
CC -!- DISRUPTION PHENOTYPE: Leaves polarity and growth defects.
CC {ECO:0000269|PubMed:19837869}.
CC -!- SIMILARITY: Belongs to the YABBY family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAC19313.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=CAB80776.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AF136540; AAD33717.1; -; mRNA.
DR EMBL; AF069299; AAC19313.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AL161471; CAB80776.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002687; AEE81834.1; -; Genomic_DNA.
DR EMBL; AY037186; AAK59771.1; -; mRNA.
DR EMBL; BT002662; AAO11578.1; -; mRNA.
DR PIR; T01346; T01346.
DR RefSeq; NP_567154.1; NM_116235.3. [Q9XFB1-1]
DR AlphaFoldDB; Q9XFB1; -.
DR SMR; Q9XFB1; -.
DR BioGRID; 13205; 14.
DR IntAct; Q9XFB1; 13.
DR STRING; 3702.AT4G00180.1; -.
DR PaxDb; Q9XFB1; -.
DR PRIDE; Q9XFB1; -.
DR ProteomicsDB; 242913; -. [Q9XFB1-1]
DR EnsemblPlants; AT4G00180.1; AT4G00180.1; AT4G00180. [Q9XFB1-1]
DR GeneID; 827914; -.
DR Gramene; AT4G00180.1; AT4G00180.1; AT4G00180. [Q9XFB1-1]
DR KEGG; ath:AT4G00180; -.
DR Araport; AT4G00180; -.
DR TAIR; locus:2126931; AT4G00180.
DR eggNOG; ENOG502QQ88; Eukaryota.
DR HOGENOM; CLU_071156_1_0_1; -.
DR InParanoid; Q9XFB1; -.
DR OMA; LEEITTC; -.
DR PhylomeDB; Q9XFB1; -.
DR PRO; PR:Q9XFB1; -.
DR Proteomes; UP000006548; Chromosome 4.
DR ExpressionAtlas; Q9XFB1; baseline and differential.
DR Genevisible; Q9XFB1; AT.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; ISS:TAIR.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0000976; F:transcription cis-regulatory region binding; IPI:TAIR.
DR GO; GO:0010158; P:abaxial cell fate specification; IGI:TAIR.
DR GO; GO:0045165; P:cell fate commitment; IBA:GO_Central.
DR GO; GO:0010154; P:fruit development; IMP:TAIR.
DR GO; GO:0009944; P:polarity specification of adaxial/abaxial axis; IMP:UniProtKB.
DR GO; GO:2000024; P:regulation of leaf development; IMP:UniProtKB.
DR GO; GO:1902183; P:regulation of shoot apical meristem development; IMP:UniProtKB.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; TAS:TAIR.
DR Gene3D; 1.10.30.10; -; 1.
DR InterPro; IPR036910; HMG_box_dom_sf.
DR InterPro; IPR006780; YABBY.
DR PANTHER; PTHR31675; PTHR31675; 1.
DR Pfam; PF04690; YABBY; 1.
DR SUPFAM; SSF47095; SSF47095; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Developmental protein; DNA-binding; Metal-binding;
KW Nucleus; Reference proteome; Zinc; Zinc-finger.
FT CHAIN 1..240
FT /note="Axial regulator YABBY 3"
FT /id="PRO_0000133719"
FT ZN_FING 30..57
FT /note="C4-type"
FT /evidence="ECO:0000255"
FT REGION 135..156
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 240 AA; 26338 MW; 4D90DA549B54A9AC CRC64;
MSSMSMSSSS APAFPPDHFS STDQLCYVHC SFCDTVLAVS VPPSSLFKTV TVRCGHCSNL
LSVTVSMRAL LLPSVSNLGH SFLPPPPPPP PPNLLEEMRS GGQNINMNMM MSHHASAHHP
NEHLVMATRN GRSVDHLQEM PRPPPANRPP EKRQRVPSAY NRFIKEEIQR IKAGNPDISH
REAFSAAAKN WAHFPHIHFG LMADHPPTKK ANVRQQEGED GMMGREGFYG SAANVGVAHN
