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O80536

- PIF3_ARATH

UniProt

O80536 - PIF3_ARATH

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Protein

Transcription factor PIF3

Gene

PIF3

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Transcription factor acting positively in the phytochrome signaling pathway. Activates transcription by binding to the G box (5'-CACGTG-3').2 Publications

GO - Molecular functioni

  1. DNA binding Source: TAIR
  2. identical protein binding Source: IntAct
  3. sequence-specific DNA binding transcription factor activity Source: TAIR

GO - Biological processi

  1. de-etiolation Source: TAIR
  2. gibberellic acid mediated signaling pathway Source: TAIR
  3. positive regulation of anthocyanin metabolic process Source: TAIR
  4. red, far-red light phototransduction Source: UniProtKB-KW
  5. red or far-red light signaling pathway Source: TAIR
  6. regulation of transcription, DNA-templated Source: TAIR
  7. response to red or far red light Source: TAIR
  8. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Phytochrome signaling pathway, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription factor PIF3
Alternative name(s):
Basic helix-loop-helix protein 8
Short name:
AtbHLH8
Short name:
bHLH 8
Phytochrome-associated protein 3
Phytochrome-interacting factor 3
Transcription factor EN 100
bHLH transcription factor bHLH008
Gene namesi
Name:PIF3
Synonyms:BHLH8, EN100, PAP3
Ordered Locus Names:At1g09530
ORF Names:F14J9.19
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 1

Organism-specific databases

TAIRiAT1G09530.

Subcellular locationi

GO - Cellular componenti

  1. nucleus Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 524524Transcription factor PIF3PRO_0000127428Add
BLAST

Proteomic databases

PRIDEiO80536.

Expressioni

Inductioni

By UV treatment.1 Publication

Gene expression databases

GenevestigatoriO80536.

Interactioni

Subunit structurei

Homodimer (Probable). Can form a heterodimer with REP1 and PIF4. Phytochrome B binds specifically to DNA-bound PIF3, but only upon red light induced conversion to the Pfr form (PfrB). Reconversion to Pr form causes rapid dissociation. Interacts with APRR1/TOC1.3 PublicationsCurated

Binary interactionsi

WithEntry#Exp.IntActNotes
itself3EBI-625701,EBI-625701
HFR1Q9FE226EBI-625701,EBI-626001
PHYAP147128EBI-625701,EBI-624446
PHYBP1471319EBI-625701,EBI-300727
PIF1Q8GZM76EBI-625701,EBI-630400
PIF4Q8W2F3-23EBI-625701,EBI-625732

Protein-protein interaction databases

BioGridi22720. 21 interactions.
DIPiDIP-33892N.
IntActiO80536. 12 interactions.
MINTiMINT-8058904.

Structurei

3D structure databases

ProteinModelPortaliO80536.
SMRiO80536. Positions 346-395.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini343 – 39250bHLHPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi353 – 3586Poly-Arg
Compositional biasi422 – 4287Poly-Ala

Sequence similaritiesi

Contains 1 bHLH (basic helix-loop-helix) domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiNOG285764.
InParanoidiO80536.
KOiK12126.
OMAiQIMSMAS.
PhylomeDBiO80536.

Family and domain databases

Gene3Di4.10.280.10. 1 hit.
InterProiIPR011598. bHLH_dom.
[Graphical view]
PfamiPF00010. HLH. 1 hit.
[Graphical view]
SMARTiSM00353. HLH. 1 hit.
[Graphical view]
SUPFAMiSSF47459. SSF47459. 1 hit.
PROSITEiPS50888. BHLH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O80536-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MPLFELFRLT KAKLESAQDR NPSPPVDEVV ELVWENGQIS TQSQSSRSRN
60 70 80 90 100
IPPPQANSSR AREIGNGSKT TMVDEIPMSV PSLMTGLSQD DDFVPWLNHH
110 120 130 140 150
PSLDGYCSDF LRDVSSPVTV NEQESDMAVN QTAFPLFQRR KDGNESAPAA
160 170 180 190 200
SSSQYNGFQS HSLYGSDRAR DLPSQQTNPD RFTQTQEPLI TSNKPSLVNF
210 220 230 240 250
SHFLRPATFA KTTNNNLHDT KEKSPQSPPN VFQTRVLGAK DSEDKVLNES
260 270 280 290 300
VASATPKDNQ KACLISEDSC RKDQESEKAV VCSSVGSGNS LDGPSESPSL
310 320 330 340 350
SLKRKHSNIQ DIDCHSEDVE EESGDGRKEA GPSRTGLGSK RSRSAEVHNL
360 370 380 390 400
SERRRRDRIN EKMRALQELI PNCNKVDKAS MLDEAIEYLK SLQLQVQIMS
410 420 430 440 450
MASGYYLPPA VMFPPGMGHY PAAAAAMAMG MGMPYAMGLP DLSRGGSSVN
460 470 480 490 500
HGPQFQVSGM QQQPVAMGIP RVSGGGIFAG SSTIGNGSTR DLSGSKDQTT
510 520
TNNNSNLKPI KRKQGSSDQF CGSS
Length:524
Mass (Da):56,990
Last modified:November 1, 1998 - v1
Checksum:i1044AC01D598DE7C
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti15 – 151E → D in AAC99771. 1 PublicationCurated
Sequence conflicti344 – 3441S → L in AAC99771. 1 PublicationCurated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti124 – 1241E → D in strain: cv. An-2 and cv. Su-0. 1 Publication
Natural varianti141 – 1411K → N in strain: cv. An-2 and cv. Su-0. 1 Publication
Natural varianti176 – 1761Q → H in strain: cv. An-2 and cv. Su-0. 1 Publication
Natural varianti186 – 1861Q → K in strain: cv. An-2 and cv. Su-0. 1 Publication
Natural varianti209 – 2091F → L in strain: cv. An-2 and cv. Su-0. 1 Publication
Natural varianti220 – 2201T → I in strain: cv. An-2 and cv. Su-0. 1 Publication
Natural varianti236 – 2361V → I in strain: cv. An-2 and cv. Su-0. 1 Publication

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF100166 mRNA. Translation: AAC95156.1.
AF251693 mRNA. Translation: AAL55715.1.
AF088280 mRNA. Translation: AAC99771.1.
AC003970 Genomic DNA. Translation: AAC33213.1.
CP002684 Genomic DNA. Translation: AEE28457.1.
CP002684 Genomic DNA. Translation: AEE28458.1.
AK117255 mRNA. Translation: BAC41930.1.
EF193482 Genomic DNA. Translation: ABP96435.1.
EF193483 Genomic DNA. Translation: ABP96436.1.
EF193484 Genomic DNA. Translation: ABP96437.1.
EF193485 Genomic DNA. Translation: ABP96438.1.
EF193486 Genomic DNA. Translation: ABP96439.1.
EF193487 Genomic DNA. Translation: ABP96440.1.
EF193488 Genomic DNA. Translation: ABP96441.1.
EF193489 Genomic DNA. Translation: ABP96442.1.
EF193490 Genomic DNA. Translation: ABP96443.1.
EF193491 Genomic DNA. Translation: ABP96444.1.
EF193492 Genomic DNA. Translation: ABP96445.1.
EF193493 Genomic DNA. Translation: ABP96446.1.
EF193494 Genomic DNA. Translation: ABP96447.1.
EF193495 Genomic DNA. Translation: ABP96448.1.
EF193496 Genomic DNA. Translation: ABP96449.1.
PIRiH86228.
RefSeqiNP_172424.1. NM_100824.2.
NP_849626.1. NM_179295.2.
UniGeneiAt.10926.

Genome annotation databases

EnsemblPlantsiAT1G09530.1; AT1G09530.1; AT1G09530.
AT1G09530.2; AT1G09530.2; AT1G09530.
GeneIDi837479.
KEGGiath:AT1G09530.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF100166 mRNA. Translation: AAC95156.1 .
AF251693 mRNA. Translation: AAL55715.1 .
AF088280 mRNA. Translation: AAC99771.1 .
AC003970 Genomic DNA. Translation: AAC33213.1 .
CP002684 Genomic DNA. Translation: AEE28457.1 .
CP002684 Genomic DNA. Translation: AEE28458.1 .
AK117255 mRNA. Translation: BAC41930.1 .
EF193482 Genomic DNA. Translation: ABP96435.1 .
EF193483 Genomic DNA. Translation: ABP96436.1 .
EF193484 Genomic DNA. Translation: ABP96437.1 .
EF193485 Genomic DNA. Translation: ABP96438.1 .
EF193486 Genomic DNA. Translation: ABP96439.1 .
EF193487 Genomic DNA. Translation: ABP96440.1 .
EF193488 Genomic DNA. Translation: ABP96441.1 .
EF193489 Genomic DNA. Translation: ABP96442.1 .
EF193490 Genomic DNA. Translation: ABP96443.1 .
EF193491 Genomic DNA. Translation: ABP96444.1 .
EF193492 Genomic DNA. Translation: ABP96445.1 .
EF193493 Genomic DNA. Translation: ABP96446.1 .
EF193494 Genomic DNA. Translation: ABP96447.1 .
EF193495 Genomic DNA. Translation: ABP96448.1 .
EF193496 Genomic DNA. Translation: ABP96449.1 .
PIRi H86228.
RefSeqi NP_172424.1. NM_100824.2.
NP_849626.1. NM_179295.2.
UniGenei At.10926.

3D structure databases

ProteinModelPortali O80536.
SMRi O80536. Positions 346-395.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 22720. 21 interactions.
DIPi DIP-33892N.
IntActi O80536. 12 interactions.
MINTi MINT-8058904.

Proteomic databases

PRIDEi O80536.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT1G09530.1 ; AT1G09530.1 ; AT1G09530 .
AT1G09530.2 ; AT1G09530.2 ; AT1G09530 .
GeneIDi 837479.
KEGGi ath:AT1G09530.

Organism-specific databases

TAIRi AT1G09530.

Phylogenomic databases

eggNOGi NOG285764.
InParanoidi O80536.
KOi K12126.
OMAi QIMSMAS.
PhylomeDBi O80536.

Gene expression databases

Genevestigatori O80536.

Family and domain databases

Gene3Di 4.10.280.10. 1 hit.
InterProi IPR011598. bHLH_dom.
[Graphical view ]
Pfami PF00010. HLH. 1 hit.
[Graphical view ]
SMARTi SM00353. HLH. 1 hit.
[Graphical view ]
SUPFAMi SSF47459. SSF47459. 1 hit.
PROSITEi PS50888. BHLH. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "PIF3, a phytochrome-interacting factor necessary for normal photoinduced signal transduction, is a novel basic helix-loop-helix protein."
    Ni M., Tepperman J.M., Quail P.H.
    Cell 95:657-667(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA].
    Strain: cv. Columbia.
  2. "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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], INDUCTION BY UV LIGHT, GENE FAMILY, NOMENCLATURE.
    Strain: cv. Columbia.
  3. "Identification and characterization of three phytochrome-associated proteins."
    Lee J., Yi H., Shin B., Song P.-S., Choi G.
    Submitted (AUG-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: cv. Columbia.
  4. "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
    Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K.
    , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
    Nature 408:816-820(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  5. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  7. "Sequence diversity and haplotype associations with phenotypic responses to crowding: GIGANTEA affects fruit set in Arabidopsis thaliana."
    Brock M.T., Tiffin P., Weinig C.
    Mol. Ecol. 16:3050-3062(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 12-272, VARIANTS ASP-124; ASN-141; HIS-176; LYS-186; LEU-209; ILE-220 AND ILE-236.
    Strain: cv. An-2, cv. Bla-6, cv. Br-0, cv. Bu-2, cv. Columbia, cv. Di-1, cv. Et-0, cv. Kl-1, cv. Li-5:3, cv. Ma-2, cv. Mt-0, cv. Pa-2, cv. Pi-0, cv. Su-0 and cv. Tsu-1.
  8. "Binding of phytochrome B to its nuclear signalling partner PIF3 is reversibly induced by light."
    Ni M., Tepperman J.M., Quail P.H.
    Nature 400:781-784(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  9. "Direct targeting of light signals to a promoter element-bound transcription factor."
    Martinez-Garcia J.F., Huq E., Quail P.H.
    Science 288:859-863(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  10. "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] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH APRR1.
  11. "The Arabidopsis basic/helix-loop-helix transcription factor family."
    Toledo-Ortiz G., Huq E., Quail P.H.
    Plant Cell 15:1749-1770(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY, INTERACTION WITH PIF4.
  12. "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] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH APRR1.

Entry informationi

Entry nameiPIF3_ARATH
AccessioniPrimary (citable) accession number: O80536
Secondary accession number(s): A5Y7A2
, A5Y7A3, A5Y7A4, A5Y7A5, A5Y7A6, A5Y7A7, A5Y7A8, A5Y7A9, A5Y7B0, A5Y7B1, A5Y7B2, A5Y7B3, A5Y7B4, A5Y7B5, A5Y7B6, Q9SBC5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 10, 2002
Last sequence update: November 1, 1998
Last modified: October 29, 2014
This is version 123 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3