Reviewed, UniProtKB/Swiss-Prot Q8L5W7 (PIF6_ARATH)

Names and origin

Protein names

Recommended name:
    Transcription factor PIF6
Alternative name(s):
    Protein PHYTOCHROME-INTERACTING FACTOR 6
    Protein PHYTOCHROME INTERACTING FACTOR 3-LIKE 2
    Transcription factor EN 111
    bHLH transcription factor bHLH132
    Basic helix-loop-helix protein 132
      Short name=bHLH 132
      Short name=AtbHLH132

Gene names

Name:	PIF6
Synonyms:	BHLH132, EN111, PIL2
Ordered Locus Names:	At3g62090
ORF Names:	T17J13.50

Organism

Arabidopsis thaliana (Mouse-ear cress) [Complete proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › eurosids II › Brassicales › Brassicaceae › Arabidopsis

Protein attributes

Sequence length	363 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Subunit structure	Homodimer Probable. Interacts with APRR1/TOC1.
Subcellular location	Nucleus Potential.
Sequence similarities	Contains 1 basic helix-loop-helix (bHLH) domain.
Sequence caution	The sequence CAB71869.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Ligand	DNA-binding
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	red or far red light signaling pathway Inferred from expression pattern. Source: TAIR regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Ref.6 Inferred from physical interaction. Source: IntAct transcription regulator activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
PHYB	P14713	1	EBI-631639,EBI-300727

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q8L5W7-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Isoform 2 (identifier: Q8L5W7-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-17: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 363	363	Transcription factor PIF6		PRO_0000358852
Regions
	Domain	202 – 242	41	Helix-loop-helix motif
	DNA binding	185 – 201	17	Basic motif By similarity
	Compositional bias	243 – 276	34	Met-rich
Natural variations
	Alternative sequence	1 – 17	17	Missing in isoform 2.		VSP_036113

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified October 1, 2002. Version 1. Checksum: 15AD124E07949873	FASTA	363	40,547
	10 20 30 40 50 60 MMFLPTDYCC RLSDQEYMEL VFENGQILAK GQRSNVSLHN QRTKSIMDLY EAEYNEDFMK 70 80 90 100 110 120 SIIHGGGGAI TNLGDTQVVP QSHVAAAHET NMLESNKHVD DSETLKASSS KRMMVDYHNR 130 140 150 160 170 180 KKIKFIPPDE QSVVADRSFK LGFDTSSVGF TEDSEGSMYL SSSLDDESDD ARPQVPARTR 190 200 210 220 230 240 KALVKRKRNA EAYNSPERNQ RNDINKKMRT LQNLLPNSHK DDNESMLDEA INYMTNLQLQ 250 260 270 280 290 300 VQMMTMGNRF VTPSMMMPLG PNYSQMGLAM GVGMQMGEQQ FLPAHVLGAG LPGINDSADM 310 320 330 340 350 360 LRFLNHPGLM PMQNSAPFIP TENCSPQSVP PSCAAFPNQI PNPNSLSNLD GATLHKKSRK TNR
	Isoform 2. Checksum: 9FEA57E900C2B942	FASTA	346	38,449
	10 20 30 40 50 60 MELVFENGQI LAKGQRSNVS LHNQRTKSIM DLYEAEYNED FMKSIIHGGG GAITNLGDTQ 70 80 90 100 110 120 VVPQSHVAAA HETNMLESNK HVDDSETLKA SSSKRMMVDY HNRKKIKFIP PDEQSVVADR 130 140 150 160 170 180 SFKLGFDTSS VGFTEDSEGS MYLSSSLDDE SDDARPQVPA RTRKALVKRK RNAEAYNSPE 190 200 210 220 230 240 RNQRNDINKK MRTLQNLLPN SHKDDNESML DEAINYMTNL QLQVQMMTMG NRFVTPSMMM 250 260 270 280 290 300 PLGPNYSQMG LAMGVGMQMG EQQFLPAHVL GAGLPGINDS ADMLRFLNHP GLMPMQNSAP 310 320 330 340 FIPTENCSPQ SVPPSCAAFP NQIPNPNSLS NLDGATLHKK SRKTNR

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The APRR1/TOC1 quintet implicated in circadian rhythms of Arabidopsis thaliana: I. Characterization with APRR1-overexpressing plants." Makino S., Matsushika A., Kojima M., Yamashino T., Mizuno T. Plant Cell Physiol. 43:58-69(2002) [PubMed: 11828023] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
[2]	"Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana." Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F. , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S. Nature 408:820-822(2000) [PubMed: 11130713] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[3]	"Arabidopsis ORF clones." De Los Reyes C., Quan R., Chen H., Bautista V.R., Kim C.J., Ecker J.R. Submitted (JUN-2008) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Strain: cv. Columbia.
[4]	"The basic helix-loop-helix transcription factor family in plants: a genome-wide study of protein structure and functional diversity." Heim M.A., Jakoby M., Werber M., Martin C., Weisshaar B., Bailey P.C. Mol. Biol. Evol. 20:735-747(2003) [PubMed: 12679534] [Abstract] Cited for: GENE FAMILY, NOMENCLATURE.
[5]	"The Arabidopsis basic/helix-loop-helix transcription factor family." Toledo-Ortiz G., Huq E., Quail P.H. Plant Cell 15:1749-1770(2003) [PubMed: 12897250] [Abstract] Cited for: GENE FAMILY.
[6]	"A Link between circadian-controlled bHLH factors and the APRR1/TOC1 quintet in Arabidopsis thaliana." Yamashino T., Matsushika A., Fujimori T., Sato S., Kato T., Tabata S., Mizuno T. Plant Cell Physiol. 44:619-629(2003) [PubMed: 12826627] [Abstract] Cited for: INTERACTION WITH APRR1/TOC1.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AB090874 Transcribed RNA. Translation: BAC10690.1. AL138651 Genomic DNA. Translation: CAB71869.1. Sequence problems. BT033108 mRNA. Translation: ACF16169.1.
IPI	IPI00525935. IPI00846835.
PIR	T48001.
RefSeq	NP_001078329.1.
UniGene	At.1005 At.50304
3D structure databases
ModBase	Search...
Protein-protein interaction databases
IntAct	Q8L5W7. 1 interaction.
Genome annotation databases
GeneID	825382.
GenomeReviews	Gene locus AT3G62090 in contig BA000014_GR.
KEGG	ath:AT3G62090.
NMPDR	fig|3702.1.peg.17591.
Organism-specific databases
TAIR	At3g62090.
Family and domain databases
InterPro	IPR001092. HLH_basic. [Graphical view]
Pfam	PF00010. HLH. 1 hit. [Graphical view]
SMART	SM00353. HLH. 1 hit. [Graphical view]
PROSITE	PS50888. HLH. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

PIF6_ARATH

Accession

Primary (citable) accession number: Q8L5W7
Secondary accession number(s): A8MSC2, Q9M1R5

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 16, 2008
Last sequence update:	October 1, 2002
Last modified:	June 16, 2009
This is version 31 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)