ID   PIL1_ARATH              Reviewed;         416 AA.
AC   Q8L5W8; O80727; Q84WY4;
DT   16-DEC-2008, integrated into UniProtKB/Swiss-Prot.
DT   01-OCT-2002, sequence version 1.
DT   07-JUL-2009, entry version 42.
DE   RecName: Full=Transcription factor PIL1;
DE   AltName: Full=Protein PHYTOCHROME INTERACTING FACTOR 3-LIKE 1;
DE   AltName: Full=Transcription factor EN 110;
DE   AltName: Full=bHLH transcription factor bHLH124;
DE   AltName: Full=Basic helix-loop-helix protein 124;
DE            Short=bHLH 124;
DE            Short=AtbHLH124;
GN   Name=PIL1; Synonyms=BHLH124, EN110; OrderedLocusNames=At2g46970;
GN   ORFNames=F14M4.20;
OS   Arabidopsis thaliana (Mouse-ear cress).
OC   Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC   Spermatophyta; Magnoliophyta; eudicotyledons; core eudicotyledons;
OC   rosids; eurosids II; Brassicales; Brassicaceae; Arabidopsis.
OX   NCBI_TaxID=3702;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [MRNA], AND INTERACTION WITH APRR1/TOC1.
RX   MEDLINE=21686507; 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   MEDLINE=20083487; 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.,
RA   Moffat K.S., Cronin L.A., Shen M., Pai G., Van Aken S., Umayam L.,
RA   Tallon L.J., Gill J.E., Adams M.D., Carrera A.J., Creasy T.H.,
RA   Goodman H.M., Somerville C.R., Copenhaver G.P., Preuss D.,
RA   Nierman W.C., White O., Eisen J.A., Salzberg S.L., Fraser C.M.,
RA   Venter J.C.;
RT   "Sequence and analysis of chromosome 2 of the plant Arabidopsis
RT   thaliana.";
RL   Nature 402:761-768(1999).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=cv. Columbia;
RX   MEDLINE=22369114; PubMed=12481096; DOI=10.1104/pp.010207;
RA   Xiao Y.-L., Malik M., Whitelaw C.A., Town C.D.;
RT   "Cloning and sequencing of cDNAs for hypothetical genes from
RT   chromosome 2 of Arabidopsis.";
RL   Plant Physiol. 130:2118-2128(2002).
RN   [4]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=cv. Columbia;
RA   Underwood B.A., Xiao Y.-L., Moskal W.A. Jr., Monaghan E.L., Wang W.,
RA   Redman J.C., Wu H.C., Utterback T., Town C.D.;
RL   Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases.
RN   [5]
RP   GENE FAMILY, AND NOMENCLATURE.
RX   MEDLINE=22598051; 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   FUNCTION, AND INDUCTION.
RX   PubMed=14668869; DOI=10.1038/nature02174;
RA   Salter M.G., Franklin K.A., Whitelam G.C.;
RT   "Gating of the rapid shade-avoidance response by the circadian clock
RT   in plants.";
RL   Nature 426:680-683(2003).
RN   [7]
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   [8]
RP   INTERACTION WITH APRR1/TOC1, AND TISSUE SPECIFICITY.
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   FUNCTION, SUBCELLULAR LOCATION, AND INDUCTION.
RX   PubMed=16891401; DOI=10.1105/tpc.106.042200;
RA   Khanna R., Shen Y., Toledo-Ortiz G., Kikis E.A., Johannesson H.,
RA   Hwang Y.-S., Quail P.H.;
RT   "Functional profiling reveals that only a small number of phytochrome-
RT   regulated early-response genes in Arabidopsis are necessary for
RT   optimal deetiolation.";
RL   Plant Cell 18:2157-2171(2006).
RN   [10]
RP   FUNCTION, AND INDUCTION BY FAR-RED LIGHT.
RX   PubMed=16565297; DOI=10.1104/pp.105.076331;
RA   Roig-Villanova I., Bou J., Sorin C., Devlin P.F.,
RA   Martinez-Garcia J.F.;
RT   "Identification of primary target genes of phytochrome signaling.
RT   Early transcriptional control during shade avoidance responses in
RT   Arabidopsis.";
RL   Plant Physiol. 141:85-96(2006).
CC   -!- FUNCTION: Transcription factor. Involved in responses to transient
CC       and long-term shade. Required for the light-mediated inhibition of
CC       hypocotyl elongation. Necessary for rapid light-induced expression
CC       of the photomorphogenesis- and circadian-related gene APRR9. Seems
CC       to play a role in multiple PHYB responses, such as flowering
CC       transition and petiole elongation.
CC   -!- SUBUNIT: Homodimer (Probable). Interacts with APRR1/TOC1.
CC   -!- INTERACTION:
CC       Q9LKL2:APRR1; NbExp=3; IntAct=EBI-630752, EBI-618423;
CC   -!- SUBCELLULAR LOCATION: Nucleus.
CC   -!- TISSUE SPECIFICITY: Etiolated seedlings.
CC   -!- INDUCTION: Expressed with a circadian rhythm showing peaks during
CC       the light period. Up-regulated by simulated shade in light-grown
CC       plants, in a phytochrome-dependent manner; low red/far-red ratio
CC       (R/FR) light, but repressed by a high R/FR light. Rapidly down-
CC       regulated after seedling deetiolation.
CC   -!- SIMILARITY: Contains 1 basic helix-loop-helix (bHLH) domain.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=AAC34226.1; Type=Erroneous gene model prediction;
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DR   EMBL; AB090873; BAC10689.1; -; Transcribed_RNA.
DR   EMBL; AC004411; AAC34226.1; ALT_SEQ; Genomic_DNA.
DR   EMBL; AY219127; AAO37214.1; -; mRNA.
DR   EMBL; AY954840; AAX55166.1; -; mRNA.
DR   IPI; IPI00545843; -.
DR   PIR; T02190; T02190.
DR   RefSeq; NP_182220.2; -.
DR   UniGene; At.36425; -.
DR   IntAct; Q8L5W8; 1.
DR   GeneID; 819311; -.
DR   GenomeReviews; CT485783_GR; AT2G46970.
DR   KEGG; ath:AT2G46970; -.
DR   NMPDR; fig|3702.1.peg.11885; -.
DR   TAIR; At2g46970; -.
DR   GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR   GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR   GO; GO:0005515; F:protein binding; IPI:IntAct.
DR   GO; GO:0030528; F:transcription regulator activity; IEA:InterPro.
DR   GO; GO:0010017; P:red or far red light signaling pathway; IMP:TAIR.
DR   GO; GO:0006355; P:regulation of transcription, DNA-dependent; IEA:UniProtKB-KW.
DR   GO; GO:0009641; P:shade avoidance; IEP:TAIR.
DR   GO; GO:0006350; P:transcription; IEA:UniProtKB-KW.
DR   InterPro; IPR001092; HLH_basic.
DR   InterPro; IPR011598; HLH_DNA_bd.
DR   Gene3D; G3DSA:4.10.280.10; HLH_DNA_bd; 1.
DR   Pfam; PF00010; HLH; 1.
DR   SMART; SM00353; HLH; 1.
DR   PROSITE; PS50888; HLH; 1.
PE   1: Evidence at protein level;
KW   Coiled coil; Complete proteome; DNA-binding; Nucleus; Transcription;
KW   Transcription regulation.
FT   CHAIN         1    416       Transcription factor PIL1.
FT                                /FTId=PRO_0000358853.
FT   DOMAIN      243    283       Helix-loop-helix motif.
FT   DNA_BIND    219    242       Basic motif (By similarity).
FT   COILED       95    124       Potential.
FT   CONFLICT    302    302       H -> K (in Ref. 3; AAO37214).
SQ   SEQUENCE   416 AA;  46580 MW;  69B86687CC1901CF CRC64;
     MEAKPLASSS SEPNMISPSS NIKPKLKDED YMELVCENGQ ILAKIRRPKN NGSFQKQRRQ
     SLLDLYETEY SEGFKKNIKI LGDTQVVPVS QSKPQQDKET NEQMNNNKKK LKSSKIEFER
     NVSKSNKCVE SSTLIDVSAK GPKNVEVTTA PPDEQSAAVG RSTELYFASS SKFSRGTSRD
     LSCCSLKRKY GDIEEEESTY LSNNSDDESD DAKTQVHART RKPVTKRKRS TEVHKLYERK
     RRDEFNKKMR ALQDLLPNCY KDDKASLLDE AIKYMRTLQL QVQMMSMGNG LIRPPTMLPM
     GHYSPMGLGM HMGAAATPTS IPQFLPMNVQ ATGFPGMNNA PPQMLSFLNH PSGLIPNTPI
     FSPLENCSQP FVVPSCVSQT QATSFTQFPK SASASNLEDA MQYRGSNGFS YYRSPN
//