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Reviewed, UniProtKB/Swiss-Prot O80536 (PIF3_ARATH)

Last modified July 22, 2008. Version 69. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data | Customize display text xml rdf/xml gff fasta
Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein namesRecommended name:
    Phytochrome-interacting factor 3
Alternative name(s):
    Phytochrome-associated protein 3
    Basic helix-loop-helix protein 8
      Short name=bHLH 8
      Short name=AtbHLH008
Gene names
Name: BHLH8
Synonyms: PAP3, PIF3
Ordered Locus Names: At1g09530
ORF Names: F14J9.19
OrganismArabidopsis thaliana (Mouse-ear cress) [Complete proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › eurosids II › Brassicales › Brassicaceae › Arabidopsis

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Protein attributes

Sequence length524 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is not processed.
Protein existenceEvidence at protein level.

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General annotation (Comments)

Function

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

Subunit structure

Homodimer Probable. Can form a heterodimer with REP1. 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.

Subcellular location

Nucleus.

Sequence similarities

Contains 1 basic helix-loop-helix (bHLH) domain.

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Ontologies

Keywords

   Biological processPhytochrome signaling pathway
Transcription
Transcription regulation
   Cellular componentNucleus
   LigandDNA-binding
   Technical termComplete proteome

Gene Ontology (GO)

   Molecular functionidentical protein binding

Inferred from physical interaction. Source: IntAct

Complete GO annotation...

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Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical view

Molecule processing

Chain1 – 524524Phytochrome-interacting factor 3

Regions

Domain357 – 39337Helix-loop-helix motif
DNA binding340 – 35617Basic motif
Compositional bias353 – 3586Poly-Arg
Compositional bias422 – 4287Poly-Ala

Experimental info

Sequence conflict151E → D in AAC99771. Ref.2
Sequence conflict3441S → L in AAC99771. Ref.2

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Sequences

Sequence LengthMass (Da)Tools
O80536-1 [UniParc].

Last modified November 1, 1998. Version 1.
Checksum: 1044AC01D598DE7C

FASTA52456,990
        10         20         30         40         50         60 
MPLFELFRLT KAKLESAQDR NPSPPVDEVV ELVWENGQIS TQSQSSRSRN IPPPQANSSR 

        70         80         90        100        110        120 
AREIGNGSKT TMVDEIPMSV PSLMTGLSQD DDFVPWLNHH PSLDGYCSDF LRDVSSPVTV 

       130        140        150        160        170        180 
NEQESDMAVN QTAFPLFQRR KDGNESAPAA SSSQYNGFQS HSLYGSDRAR DLPSQQTNPD 

       190        200        210        220        230        240 
RFTQTQEPLI TSNKPSLVNF SHFLRPATFA KTTNNNLHDT KEKSPQSPPN VFQTRVLGAK 

       250        260        270        280        290        300 
DSEDKVLNES VASATPKDNQ KACLISEDSC RKDQESEKAV VCSSVGSGNS LDGPSESPSL 

       310        320        330        340        350        360 
SLKRKHSNIQ DIDCHSEDVE EESGDGRKEA GPSRTGLGSK RSRSAEVHNL SERRRRDRIN 

       370        380        390        400        410        420 
EKMRALQELI PNCNKVDKAS MLDEAIEYLK SLQLQVQIMS MASGYYLPPA VMFPPGMGHY 

       430        440        450        460        470        480 
PAAAAAMAMG MGMPYAMGLP DLSRGGSSVN HGPQFQVSGM QQQPVAMGIP RVSGGGIFAG 

       490        500        510        520 
SSTIGNGSTR DLSGSKDQTT TNNNSNLKPI KRKQGSSDQF CGSS

« Hide

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References

« Hide 'large scale' references
[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: 9845368] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA].
Strain: cv. Columbia.
[2]"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.
[3]"Overview of the bHLH transcription factor gene family in Arabidopsis thaliana."
Schoenbohm C., Weisshaar B.
Submitted (APR-2000) 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. expand/collapse author list , 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: 11130712] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[5]"Functional annotation of a full-length Arabidopsis cDNA collection."
Seki M., Narusaka M., Kamiya A., Ishida J., Satou M., Sakurai T., Nakajima M., Enju A., Akiyama K., Oono Y., Muramatsu M., Hayashizaki Y., Kawai J., Carninci P., Itoh M., Ishii Y., Arakawa T., Shibata K., Shinagawa A., Shinozaki K.
Science 296:141-145(2002) [PubMed: 11910074] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: cv. Columbia.
[6]"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: 10466729] [Abstract]
Cited for: FUNCTION.
[7]"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: 10797009] [Abstract]
Cited for: FUNCTION.
[8]"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 ORGANIZATION, NOMENCLATURE.

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Cross-references

Sequence databases

AF100166 mRNA. Translation: AAC95156.1.
AF088280 mRNA. Translation: AAC99771.1.
AF251693 mRNA. Translation: AAL55715.1.
AC003970 Genomic DNA. Translation: AAC33213.1.
AK117255 mRNA. Translation: BAC41930.1.
PIRH86228.
RefSeqNP_172424.1.
NP_849626.1.
UniGeneAt.10926

3D structure databases

HSSPHSSP built from PDB template 1HLO based on UniProtKB P25912.
ModBaseSearch...

Protein-protein interaction databases

IntActO80536.

Genome annotation databases

GeneID837479.
GenomeReviewsGene locus AT1G09530 in contig CT485782_GR.
KEGGath:AT1G09530.
NMPDRfig|3702.1.peg.1178.

Organism-specific databases

TAIRAt1g09530.

Gene expression databases

ArrayExpressO80536.
GermOnlineAT1G09530. Arabidopsis thaliana.

Family and domain databases

InterProIPR001092. HLH_basic.
IPR011598. HLH_DNA_bd.
[Graphical view]
Gene3DG3DSA:4.10.280.10. HLH_DNA_bd. 1 hit.
PfamPF00010. HLH. 1 hit.
[Graphical view]
SMARTSM00353. HLH. 1 hit.
[Graphical view]
PROSITEPS50888. HLH. 1 hit.
[Graphical view]
ProDomO80536.
[Graphical view] [Entries sharing at least one domain]
BLOCKSSearch...

Other Resources

ProtoNetSearch...

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Entry information

Entry namePIF3_ARATH
AccessionPrimary (citable) accession number: O80536
Secondary accession number(s): Q9SBC5
Entry history
Integrated into UniProtKB/Swiss-Prot: May 10, 2002
Last sequence update: November 1, 1998
Last modified: July 22, 2008
This is version 69 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation projectPPAP (Plant Proteome Annotation Project)

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Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

UniProtKB secondary accession numbers

Index of UniProtKB secondary accession numbers

SIMILARITY comments

Index of protein domains and families

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents