FAMA_ARATH
ID FAMA_ARATH Reviewed; 414 AA.
AC Q56YJ8; Q9LRN3;
DT 16-DEC-2008, integrated into UniProtKB/Swiss-Prot.
DT 10-MAY-2005, sequence version 1.
DT 03-AUG-2022, entry version 115.
DE RecName: Full=Transcription factor FAMA;
DE AltName: Full=Basic helix-loop-helix protein 97;
DE Short=AtbHLH97;
DE Short=bHLH 97;
DE AltName: Full=Transcription factor EN 14;
DE AltName: Full=bHLH transcription factor bHLH097;
GN Name=FAMA; Synonyms=BHLH97, EN14, FMA; OrderedLocusNames=At3g24140;
GN ORFNames=MUJ8.4;
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=10819329; DOI=10.1093/dnares/7.2.131;
RA Sato S., Nakamura Y., Kaneko T., Katoh T., Asamizu E., Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 3. I. Sequence
RT features of the regions of 4,504,864 bp covered by sixty P1 and TAC
RT clones.";
RL DNA Res. 7:131-135(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;
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 (MAR-2005) to the EMBL/GenBank/DDBJ databases.
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RA Bautista V.R., Kim C.J., Chen H., Quinitio C., Ecker J.R.;
RT "Arabidopsis ORF clones.";
RL Submitted (SEP-2006) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP NUCLEOTIDE SEQUENCE [MRNA] OF 191-414, TISSUE SPECIFICITY, GENE FAMILY, AND
RP NOMENCLATURE.
RC STRAIN=cv. Columbia; TISSUE=Flower;
RX PubMed=12679534; DOI=10.1093/molbev/msg088;
RA Heim M.A., Jakoby M., Werber M., Martin C., Weisshaar B., Bailey P.C.;
RT "The basic helix-loop-helix transcription factor family in plants: a
RT genome-wide study of protein structure and functional diversity.";
RL Mol. Biol. Evol. 20:735-747(2003).
RN [6]
RP GENE FAMILY.
RX PubMed=12897250; DOI=10.1105/tpc.013839;
RA Toledo-Ortiz G., Huq E., Quail P.H.;
RT "The Arabidopsis basic/helix-loop-helix transcription factor family.";
RL Plant Cell 15:1749-1770(2003).
RN [7]
RP GENE FAMILY, AND NOMENCLATURE.
RX PubMed=14600211; DOI=10.1105/tpc.151140;
RA Bailey P.C., Martin C., Toledo-Ortiz G., Quail P.H., Huq E., Heim M.A.,
RA Jakoby M., Werber M., Weisshaar B.;
RT "Update on the basic helix-loop-helix transcription factor gene family in
RT Arabidopsis thaliana.";
RL Plant Cell 15:2497-2502(2003).
RN [8]
RP FUNCTION, INTERACTION WITH BHLH071 AND BHLH093, SUBCELLULAR LOCATION,
RP DEVELOPMENTAL STAGE, AND TISSUE SPECIFICITY.
RX PubMed=17088607; DOI=10.1105/tpc.106.046136;
RA Ohashi-Ito K., Bergmann D.C.;
RT "Arabidopsis FAMA controls the final proliferation/differentiation switch
RT during stomatal development.";
RL Plant Cell 18:2493-2505(2006).
RN [9]
RP REVIEW.
RX PubMed=17691100; DOI=10.1002/bies.20625;
RA Pillitteri L.J., Torii K.U.;
RT "Breaking the silence: three bHLH proteins direct cell-fate decisions
RT during stomatal development.";
RL Bioessays 29:861-870(2007).
RN [10]
RP FUNCTION.
RX PubMed=17183267; DOI=10.1038/nature05467;
RA Pillitteri L.J., Sloan D.B., Bogenschutz N.L., Torii K.U.;
RT "Termination of asymmetric cell division and differentiation of stomata.";
RL Nature 445:501-505(2007).
RN [11]
RP FUNCTION.
RX PubMed=17183265; DOI=10.1038/nature05491;
RA MacAlister C.A., Ohashi-Ito K., Bergmann D.C.;
RT "Transcription factor control of asymmetric cell divisions that establish
RT the stomatal lineage.";
RL Nature 445:537-540(2007).
RN [12]
RP REVIEW.
RX PubMed=17928257; DOI=10.1016/j.tplants.2007.08.016;
RA Serna L.;
RT "bHLH proteins know when to make a stoma.";
RL Trends Plant Sci. 12:483-485(2007).
RN [13]
RP REPRESSION BY LOW RELATIVE HUMIDITY.
RC STRAIN=cv. Columbia, and cv. Landsberg erecta;
RX PubMed=22442411; DOI=10.1093/jxb/ers076;
RA Tricker P.J., Gibbings J.G., Rodriguez Lopez C.M., Hadley P.,
RA Wilkinson M.J.;
RT "Low relative humidity triggers RNA-directed de novo DNA methylation and
RT suppression of genes controlling stomatal development.";
RL J. Exp. Bot. 63:3799-3813(2012).
RN [14]
RP INTERACTION WITH RBR1, AND MUTAGENESIS OF 251-CYS--GLU-253.
RX PubMed=25303364; DOI=10.7554/elife.03271;
RA Matos J.L., Lau O.S., Hachez C., Cruz-Ramirez A., Scheres B.,
RA Bergmann D.C.;
RT "Irreversible fate commitment in the Arabidopsis stomatal lineage requires
RT a FAMA and RETINOBLASTOMA-RELATED module.";
RL Elife 3:0-0(2014).
RN [15]
RP FUNCTION, DISRUPTION PHENOTYPE, DEVELOPMENTAL STAGE, AND INTERACTION WITH
RP RBR1.
RC STRAIN=cv. Columbia;
RX PubMed=24571519; DOI=10.1111/tpj.12489;
RA Lee E., Lucas J.R., Sack F.D.;
RT "Deep functional redundancy between FAMA and FOUR LIPS in stomatal
RT development.";
RL Plant J. 78:555-565(2014).
RN [16]
RP FUNCTION.
RC STRAIN=cv. Columbia;
RX PubMed=24654956; DOI=10.1111/tpj.12516;
RA Lee E., Lucas J.R., Goodrich J., Sack F.D.;
RT "Arabidopsis guard cell integrity involves the epigenetic stabilization of
RT the FLP and FAMA transcription factor genes.";
RL Plant J. 78:566-577(2014).
CC -!- FUNCTION: Transcription activator (PubMed:17088607, PubMed:17183265,
CC PubMed:17183267). Together with MYB88 and MYB124, ensures that stomata
CC contain just two guard cells (GCs) by enforcing a single symmetric
CC precursor cell division before stomatal maturity (PubMed:24571519).
CC Together with SPCH and MUTE, regulates the stomata formation. Required
CC to promote differentiation and morphogenesis of stomatal guard cells
CC and to halt proliferative divisions in their immediate precursors.
CC Mediates the formation of stomata (PubMed:17088607, PubMed:17183265,
CC PubMed:17183267). Prevents histone H3K27me3 marks and derepresses stem
CC cell gene expression (PubMed:24654956). {ECO:0000269|PubMed:17088607,
CC ECO:0000269|PubMed:17183265, ECO:0000269|PubMed:17183267,
CC ECO:0000269|PubMed:24571519, ECO:0000269|PubMed:24654956}.
CC -!- SUBUNIT: Interacts with FAMA through its LxCxE motif (PubMed:25303364).
CC Self-interacts. Interacts also with bHLH071 and bHLH093
CC (PubMed:17088607). Interacts with RBR1 (PubMed:24571519).
CC {ECO:0000269|PubMed:17088607, ECO:0000269|PubMed:24571519,
CC ECO:0000269|PubMed:25303364}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00981,
CC ECO:0000269|PubMed:17088607}.
CC -!- TISSUE SPECIFICITY: Resctricted to stomatal cell lineages (at protein
CC level). Expressed in roots, leaves, stems, and flowers.
CC {ECO:0000269|PubMed:12679534, ECO:0000269|PubMed:17088607}.
CC -!- DEVELOPMENTAL STAGE: Not expressed in meristemoids, but strongly
CC expressed in guard mother cells (GMCs) and in young guard cells (at
CC protein level) (PubMed:17088607). Expressed at the transition to
CC terminal stomatal differentiation, just before and after the symmetric
CC division of stomatal differentiation, being confined to late-stage GMC
CC and to young, still differentiating guard cells (PubMed:24571519).
CC {ECO:0000269|PubMed:17088607, ECO:0000269|PubMed:24571519}.
CC -!- INDUCTION: Inhibited by low relative humidity (LRH) via epigenetic CG
CC methylation, thus leading to a reduced stomatal index.
CC {ECO:0000269|PubMed:22442411}.
CC -!- DISRUPTION PHENOTYPE: Excess symmetric divisions during stomata
CC development leading to abnormal guard cells clusters formation. Reduced
CC seeds set and low biomass. These phenotypes are complemented by MYB124.
CC {ECO:0000269|PubMed:24571519}.
CC -!- MISCELLANEOUS: Plants overexpressing FAMA exhibit ectopic stomata.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAB01355.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB028621; BAB01355.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002686; AEE76862.1; -; Genomic_DNA.
DR EMBL; AK221324; BAD94119.1; -; mRNA.
DR EMBL; BT028961; ABI54336.1; -; mRNA.
DR EMBL; AF488624; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; NP_189056.2; NM_113319.5.
DR AlphaFoldDB; Q56YJ8; -.
DR SMR; Q56YJ8; -.
DR BioGRID; 7332; 19.
DR IntAct; Q56YJ8; 15.
DR STRING; 3702.AT3G24140.1; -.
DR PaxDb; Q56YJ8; -.
DR PRIDE; Q56YJ8; -.
DR EnsemblPlants; AT3G24140.1; AT3G24140.1; AT3G24140.
DR GeneID; 822000; -.
DR Gramene; AT3G24140.1; AT3G24140.1; AT3G24140.
DR KEGG; ath:AT3G24140; -.
DR Araport; AT3G24140; -.
DR TAIR; locus:2093746; AT3G24140.
DR eggNOG; ENOG502QRJH; Eukaryota.
DR HOGENOM; CLU_044652_3_0_1; -.
DR InParanoid; Q56YJ8; -.
DR OrthoDB; 947181at2759; -.
DR PhylomeDB; Q56YJ8; -.
DR PRO; PR:Q56YJ8; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q56YJ8; baseline and differential.
DR Genevisible; Q56YJ8; 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:0046983; F:protein dimerization activity; IEA:InterPro.
DR GO; GO:0010052; P:guard cell differentiation; IMP:TAIR.
DR GO; GO:0010377; P:guard cell fate commitment; IGI:UniProtKB.
DR GO; GO:0010444; P:guard mother cell differentiation; IMP:UniProtKB.
DR GO; GO:0051782; P:negative regulation of cell division; IMP:TAIR.
DR GO; GO:0061086; P:negative regulation of histone H3-K27 methylation; IMP:UniProtKB.
DR GO; GO:0045597; P:positive regulation of cell differentiation; IMP:TAIR.
DR GO; GO:0045893; P:positive regulation of transcription, DNA-templated; IDA:TAIR.
DR GO; GO:0090547; P:response to low humidity; IEP:UniProtKB.
DR GO; GO:0010374; P:stomatal complex development; IBA:GO_Central.
DR Gene3D; 4.10.280.10; -; 1.
DR InterPro; IPR011598; bHLH_dom.
DR InterPro; IPR044283; FAMA/SPEECHLESS/MUTE.
DR InterPro; IPR036638; HLH_DNA-bd_sf.
DR PANTHER; PTHR46684; PTHR46684; 1.
DR Pfam; PF00010; HLH; 1.
DR SMART; SM00353; HLH; 1.
DR SUPFAM; SSF47459; SSF47459; 1.
DR PROSITE; PS50888; BHLH; 1.
PE 1: Evidence at protein level;
KW Activator; Developmental protein; DNA-binding; Nucleus; Reference proteome;
KW Transcription; Transcription regulation.
FT CHAIN 1..414
FT /note="Transcription factor FAMA"
FT /id="PRO_0000358843"
FT DOMAIN 194..245
FT /note="bHLH"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00981"
FT REGION 1..61
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 142..197
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 249..253
FT /note="LxCxE motif"
FT /evidence="ECO:0000269|PubMed:25303364"
FT COMPBIAS 11..54
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 159..174
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MUTAGEN 251..253
FT /note="CLE->GLK: Abolishes interaction with RBR1 that leads
FT to a stomatal lineage-specific loss of terminal
FT commitment."
FT /evidence="ECO:0000269|PubMed:25303364"
SQ SEQUENCE 414 AA; 46408 MW; 70F6B5DC0732B1B2 CRC64;
MDKDYSAPNF LGESSGGNDD NSSGMIDYMF NRNLQQQQKQ SMPQQQQHQL SPSGFGATPF
DKMNFSDVMQ FADFGSKLAL NQTRNQDDQE TGIDPVYFLK FPVLNDKIED HNQTQHLMPS
HQTSQEGGEC GGNIGNVFLE EKEDQDDDND NNSVQLRFIG GEEEDRENKN VTKKEVKSKR
KRARTSKTSE EVESQRMTHI AVERNRRKQM NEHLRVLRSL MPGSYVQRGD QASIIGGAIE
FVRELEQLLQ CLESQKRRRI LGETGRDMTT TTTSSSSPIT TVANQAQPLI ITGNVTELEG
GGGLREETAE NKSCLADVEV KLLGFDAMIK ILSRRRPGQL IKTIAALEDL HLSILHTNIT
TMEQTVLYSF NVKITSETRF TAEDIASSIQ QIFSFIHANT NISGSSNLGN IVFT
