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O80536

- PIF3_ARATH

UniProt

O80536 - PIF3_ARATH

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
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    • History
      Entry version 122 (01 Oct 2014)
      Sequence version 1 (01 Nov 1998)
      Previous versions | rss
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    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. protein binding Source: IntAct
    4. 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

    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

    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

    MPLFELFRLT KAKLESAQDR NPSPPVDEVV ELVWENGQIS TQSQSSRSRN    50
    IPPPQANSSR AREIGNGSKT TMVDEIPMSV PSLMTGLSQD DDFVPWLNHH 100
    PSLDGYCSDF LRDVSSPVTV NEQESDMAVN QTAFPLFQRR KDGNESAPAA 150
    SSSQYNGFQS HSLYGSDRAR DLPSQQTNPD RFTQTQEPLI TSNKPSLVNF 200
    SHFLRPATFA KTTNNNLHDT KEKSPQSPPN VFQTRVLGAK DSEDKVLNES 250
    VASATPKDNQ KACLISEDSC RKDQESEKAV VCSSVGSGNS LDGPSESPSL 300
    SLKRKHSNIQ DIDCHSEDVE EESGDGRKEA GPSRTGLGSK RSRSAEVHNL 350
    SERRRRDRIN EKMRALQELI PNCNKVDKAS MLDEAIEYLK SLQLQVQIMS 400
    MASGYYLPPA VMFPPGMGHY PAAAAAMAMG MGMPYAMGLP DLSRGGSSVN 450
    HGPQFQVSGM QQQPVAMGIP RVSGGGIFAG SSTIGNGSTR DLSGSKDQTT 500
    TNNNSNLKPI KRKQGSSDQF CGSS 524
    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:
    EMBL
    GenBank
    DDBJ
    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:
    EMBL
    GenBank
    DDBJ
    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

    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 1, 2014
    This is version 122 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