YAB4_ARATH
ID YAB4_ARATH Reviewed; 231 AA.
AC Q9LDT3; Q9SE21;
DT 22-NOV-2005, integrated into UniProtKB/Swiss-Prot.
DT 22-NOV-2005, sequence version 2.
DT 03-AUG-2022, entry version 128.
DE RecName: Full=Axial regulator YABBY 4;
DE AltName: Full=Protein INNER NO OUTER;
GN Name=YAB4; Synonyms=INO; OrderedLocusNames=At1g23420;
GN ORFNames=F26F24.29, F28C11.6;
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, INDUCTION, AND
RP MUTAGENESIS OF LYS-147.
RC STRAIN=cv. Col-3;
RX PubMed=10601041; DOI=10.1101/gad.13.23.3160;
RA Villanueva J.M., Broadhvest J., Hauser B.A., Meister R.J., Schneitz K.,
RA Gasser C.S.;
RT "INNER NO OUTER regulates abaxial-adaxial patterning in Arabidopsis
RT ovules.";
RL Genes Dev. 13:3160-3169(1999).
RN [2]
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 [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 FUNCTION.
RX PubMed=9118807; DOI=10.1242/dev.124.7.1367;
RA Schneitz K., Huelskamp M., Kopczak S.D., Pruitt R.E.;
RT "Dissection of sexual organ ontogenesis: a genetic analysis of ovule
RT development in Arabidopsis thaliana.";
RL Development 124:1367-1376(1997).
RN [5]
RP FUNCTION.
RX PubMed=9093862; DOI=10.1093/genetics/145.4.1109;
RA Baker S.C., Robinson-Beers K., Villanueva J.M., Gaiser J.C., Gasser C.S.;
RT "Interactions among genes regulating ovule development in Arabidopsis
RT thaliana.";
RL Genetics 145:1109-1124(1997).
RN [6]
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 [7]
RP FUNCTION, DEVELOPMENTAL STAGE, SUBCELLULAR LOCATION, AND INDUCTION.
RX PubMed=12183380; DOI=10.1242/dev.129.18.4281;
RA Meister R.J., Kotow L.M., Gasser C.S.;
RT "SUPERMAN attenuates positive INNER NO OUTER autoregulation to maintain
RT polar development of Arabidopsis ovule outer integuments.";
RL Development 129:4281-4289(2002).
RN [8]
RP DEVELOPMENTAL STAGE, AND INDUCTION.
RX PubMed=12183381; DOI=10.1242/dev.129.18.4291;
RA Balasubramanian S., Schneitz K.;
RT "NOZZLE links proximal-distal and adaxial-abaxial pattern formation during
RT ovule development in Arabidopsis thaliana.";
RL Development 129:4291-4300(2002).
RN [9]
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).
CC -!- FUNCTION: Essential for the formation and the abaxial-adaxial
CC asymmetric growth of the ovule outer integument.
CC {ECO:0000269|PubMed:10601041, ECO:0000269|PubMed:12183380,
CC ECO:0000269|PubMed:9093862, ECO:0000269|PubMed:9118807}.
CC -!- SUBUNIT: Interacts with SPL/NZZ. {ECO:0000269|PubMed:15299139}.
CC -!- INTERACTION:
CC Q9LDT3; Q9LMN5: At1g21200; NbExp=4; IntAct=EBI-1115523, EBI-4464544;
CC Q9LDT3; Q9M9A3: At1g49010; NbExp=3; IntAct=EBI-1115523, EBI-15196751;
CC Q9LDT3; Q9LNJ5: BHLH13; NbExp=5; IntAct=EBI-1115523, EBI-4434261;
CC Q9LDT3; O80340: ERF4; NbExp=5; IntAct=EBI-1115523, EBI-966009;
CC Q9LDT3; Q9MAI5: ERF8; NbExp=3; IntAct=EBI-1115523, EBI-2000137;
CC Q9LDT3; Q9C9X7: IDD14; NbExp=3; IntAct=EBI-1115523, EBI-15191579;
CC Q9LDT3; O82595: NGA4; NbExp=3; IntAct=EBI-1115523, EBI-15193945;
CC Q9LDT3; O81836: SPL; NbExp=3; IntAct=EBI-1115523, EBI-1113588;
CC Q9LDT3; Q9S7W5: TCP13; NbExp=3; IntAct=EBI-1115523, EBI-4424877;
CC Q9LDT3; Q93Z00: TCP14; NbExp=4; IntAct=EBI-1115523, EBI-4424563;
CC Q9LDT3; Q9C9L2: TCP15; NbExp=5; IntAct=EBI-1115523, EBI-4426144;
CC Q9LDT3; Q8LPR5: TCP4; NbExp=3; IntAct=EBI-1115523, EBI-15192325;
CC Q9LDT3; Q9C518: TCP8; NbExp=3; IntAct=EBI-1115523, EBI-3134124;
CC Q9LDT3; Q9LVI4: TIFY6B; NbExp=5; IntAct=EBI-1115523, EBI-1792431;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:12183380}.
CC -!- DEVELOPMENTAL STAGE: First detected in a group of around 15 epidermal
CC cells on the abaxial half of each ovule primordium (chalaza, outer
CC integument initiation sites). Later present in the outer cell layer of
CC the outer integument on the abaxial side of the ovule primordium.
CC Confined to the chalazal end of the integument and disappears after
CC anthesis. Also present in embryos at the globular stage.
CC {ECO:0000269|PubMed:10601041, ECO:0000269|PubMed:12183380,
CC ECO:0000269|PubMed:12183381}.
CC -!- INDUCTION: Autoinduction down-regulated by SUP in adaxial region of the
CC ovule outer integument. Negatively and spatially regulated by HLL, ANT,
CC BELL1, NZZ/SPL and SUP. {ECO:0000269|PubMed:10601041,
CC ECO:0000269|PubMed:12183380, ECO:0000269|PubMed:12183381}.
CC -!- SIMILARITY: Belongs to the YABBY family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAF79582.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};
CC Sequence=AAF87002.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};
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DR EMBL; AF195047; AAF23754.1; -; mRNA.
DR EMBL; AC005292; AAF87002.1; ALT_INIT; Genomic_DNA.
DR EMBL; AC007945; AAF79582.1; ALT_INIT; Genomic_DNA.
DR EMBL; CP002684; AEE30385.1; -; Genomic_DNA.
DR RefSeq; NP_001320962.1; NM_001332600.1.
DR RefSeq; NP_564194.1; NM_102191.6.
DR AlphaFoldDB; Q9LDT3; -.
DR SMR; Q9LDT3; -.
DR BioGRID; 24189; 56.
DR IntAct; Q9LDT3; 54.
DR STRING; 3702.AT1G23420.1; -.
DR PaxDb; Q9LDT3; -.
DR PRIDE; Q9LDT3; -.
DR EnsemblPlants; AT1G23420.1; AT1G23420.1; AT1G23420.
DR GeneID; 838950; -.
DR Gramene; AT1G23420.1; AT1G23420.1; AT1G23420.
DR KEGG; ath:AT1G23420; -.
DR Araport; AT1G23420; -.
DR TAIR; locus:2028020; AT1G23420.
DR eggNOG; ENOG502QQ88; Eukaryota.
DR HOGENOM; CLU_071156_0_0_1; -.
DR InParanoid; Q9LDT3; -.
DR OMA; AARNSIW; -.
DR OrthoDB; 1464478at2759; -.
DR PhylomeDB; Q9LDT3; -.
DR PRO; PR:Q9LDT3; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q9LDT3; baseline and differential.
DR Genevisible; Q9LDT3; AT.
DR GO; GO:0005634; C:nucleus; IDA:TAIR.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
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:0045165; P:cell fate commitment; IBA:GO_Central.
DR GO; GO:0048481; P:plant ovule development; IMP:TAIR.
DR GO; GO:0009944; P:polarity specification of adaxial/abaxial axis; IDA: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 Developmental protein; DNA-binding; Metal-binding; Nucleus;
KW Reference proteome; Zinc; Zinc-finger.
FT CHAIN 1..231
FT /note="Axial regulator YABBY 4"
FT /id="PRO_0000133720"
FT ZN_FING 26..53
FT /note="C4-type"
FT /evidence="ECO:0000255"
FT REGION 98..120
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 211..231
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MUTAGEN 147
FT /note="K->KLYWSR: In ino-4; reduced development of the
FT ovule outer integument that fails to completely enclose the
FT inner integument and nucellus."
FT /evidence="ECO:0000269|PubMed:10601041"
SQ SEQUENCE 231 AA; 25957 MW; 6ABB6A8946DFC71F CRC64;
MTKLPNMTTT LNHLFDLPGQ ICHVQCGFCT TILLVSVPFT SLSMVVTVRC GHCTSLLSVN
LMKASFIPLH LLASLSHLDE TGKEEVAATD GVEEEAWKVN QEKENSPTTL VSSSDNEDED
VSRVYQVVNK PPEKRQRAPS AYNCFIKEEI RRLKAQNPSM AHKEAFSLAA KNWAHFPPAH
NKRAASDQCF CEEDNNAILP CNVFEDHEES NNGFRERKAQ RHSIWGKSPF E
