PIF6_ARATH
ID PIF6_ARATH Reviewed; 363 AA.
AC Q8L5W7; A8MSC2; Q9M1R5;
DT 16-DEC-2008, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2002, sequence version 1.
DT 03-AUG-2022, entry version 119.
DE RecName: Full=Transcription factor PIF6;
DE AltName: Full=Basic helix-loop-helix protein 132;
DE Short=AtbHLH132;
DE Short=bHLH 132;
DE AltName: Full=Protein PHYTOCHROME INTERACTING FACTOR 3-LIKE 2;
DE AltName: Full=Protein PHYTOCHROME-INTERACTING FACTOR 6;
DE AltName: Full=Transcription factor EN 111;
DE AltName: Full=bHLH transcription factor bHLH132;
GN Name=PIF6; Synonyms=BHLH132, EN111, PIL2; OrderedLocusNames=At3g62090;
GN ORFNames=T17J13.50;
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] (ISOFORM 1).
RX PubMed=11828023; DOI=10.1093/pcp/pcf005;
RA Makino S., Matsushika A., Kojima M., Yamashino T., Mizuno T.;
RT "The APRR1/TOC1 quintet implicated in circadian rhythms of Arabidopsis
RT thaliana: I. Characterization with APRR1-overexpressing plants.";
RL Plant Cell Physiol. 43:58-69(2002).
RN [2]
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 [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] (ISOFORM 2).
RC STRAIN=cv. Columbia;
RA De Los Reyes C., Quan R., Chen H., Bautista V.R., Kim C.J., Ecker J.R.;
RT "Arabidopsis ORF clones.";
RL Submitted (JUN-2008) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP GENE FAMILY, AND NOMENCLATURE.
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 INTERACTION WITH APRR1/TOC1.
RX PubMed=12826627; DOI=10.1093/pcp/pcg078;
RA Yamashino T., Matsushika A., Fujimori T., Sato S., Kato T., Tabata S.,
RA Mizuno T.;
RT "A link between circadian-controlled bHLH factors and the APRR1/TOC1
RT quintet in Arabidopsis thaliana.";
RL Plant Cell Physiol. 44:619-629(2003).
RN [9]
RP INTERACTION WITH RGL2 AND RGA.
RC STRAIN=cv. Landsberg erecta;
RX PubMed=20093430; DOI=10.1093/molbev/msq012;
RA Gallego-Bartolome J., Minguet E.G., Marin J.A., Prat S., Blazquez M.A.,
RA Alabadi D.;
RT "Transcriptional diversification and functional conservation between DELLA
RT proteins in Arabidopsis.";
RL Mol. Biol. Evol. 27:1247-1256(2010).
CC -!- SUBUNIT: Homodimer (Probable). Interacts with APRR1/TOC1. Binds to RGL2
CC and RGA. {ECO:0000269|PubMed:12826627, ECO:0000269|PubMed:20093430,
CC ECO:0000305}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00981}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q8L5W7-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q8L5W7-2; Sequence=VSP_036113;
CC -!- SEQUENCE CAUTION:
CC Sequence=CAB71869.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB090874; BAC10690.1; -; Transcribed_RNA.
DR EMBL; AL138651; CAB71869.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002686; AEE80306.1; -; Genomic_DNA.
DR EMBL; CP002686; AEE80307.1; -; Genomic_DNA.
DR EMBL; BT033108; ACF16169.1; -; mRNA.
DR PIR; T48001; T48001.
DR RefSeq; NP_001078329.1; NM_001084860.1. [Q8L5W7-1]
DR RefSeq; NP_191768.2; NM_116074.2. [Q8L5W7-2]
DR AlphaFoldDB; Q8L5W7; -.
DR BioGRID; 10696; 7.
DR IntAct; Q8L5W7; 2.
DR STRING; 3702.AT3G62090.2; -.
DR PaxDb; Q8L5W7; -.
DR PRIDE; Q8L5W7; -.
DR EnsemblPlants; AT3G62090.1; AT3G62090.1; AT3G62090. [Q8L5W7-2]
DR EnsemblPlants; AT3G62090.2; AT3G62090.2; AT3G62090. [Q8L5W7-1]
DR GeneID; 825382; -.
DR Gramene; AT3G62090.1; AT3G62090.1; AT3G62090. [Q8L5W7-2]
DR Gramene; AT3G62090.2; AT3G62090.2; AT3G62090. [Q8L5W7-1]
DR KEGG; ath:AT3G62090; -.
DR Araport; AT3G62090; -.
DR TAIR; locus:2098008; AT3G62090.
DR eggNOG; ENOG502QV9I; Eukaryota.
DR InParanoid; Q8L5W7; -.
DR OMA; NSHEDDN; -.
DR PhylomeDB; Q8L5W7; -.
DR PRO; PR:Q8L5W7; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q8L5W7; baseline and differential.
DR Genevisible; Q8L5W7; AT.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
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:0010017; P:red or far-red light signaling pathway; IEP:TAIR.
DR Gene3D; 4.10.280.10; -; 1.
DR InterPro; IPR031066; bHLH_ALC-like_plant.
DR InterPro; IPR011598; bHLH_dom.
DR InterPro; IPR036638; HLH_DNA-bd_sf.
DR PANTHER; PTHR45855; PTHR45855; 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 Alternative splicing; DNA-binding; Nucleus; Reference proteome;
KW Transcription; Transcription regulation.
FT CHAIN 1..363
FT /note="Transcription factor PIF6"
FT /id="PRO_0000358852"
FT DOMAIN 188..237
FT /note="bHLH"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00981"
FT REGION 154..204
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 340..363
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 186..204
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 1..17
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|Ref.4"
FT /id="VSP_036113"
SQ SEQUENCE 363 AA; 40547 MW; 15AD124E07949873 CRC64;
MMFLPTDYCC RLSDQEYMEL VFENGQILAK GQRSNVSLHN QRTKSIMDLY EAEYNEDFMK
SIIHGGGGAI TNLGDTQVVP QSHVAAAHET NMLESNKHVD DSETLKASSS KRMMVDYHNR
KKIKFIPPDE QSVVADRSFK LGFDTSSVGF TEDSEGSMYL SSSLDDESDD ARPQVPARTR
KALVKRKRNA EAYNSPERNQ RNDINKKMRT LQNLLPNSHK DDNESMLDEA INYMTNLQLQ
VQMMTMGNRF VTPSMMMPLG PNYSQMGLAM GVGMQMGEQQ FLPAHVLGAG LPGINDSADM
LRFLNHPGLM PMQNSAPFIP TENCSPQSVP PSCAAFPNQI PNPNSLSNLD GATLHKKSRK
TNR
