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PIF3 phytochrome interacting factor 3 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 837479, updated on 10-Oct-2019

Summary

Gene symbol
PIF3
Gene description
phytochrome interacting factor 3
Primary source
Araport:AT1G09530
Locus tag
AT1G09530
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Arabidopsis thaliana (ecotype: Columbia)
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as
F14J9.19; F14J9_19; PAP3; PHOTOCURRENT 1; phytochrome interacting factor 3; PHYTOCHROME INTERACTING FACTOR 3; PHYTOCHROME-ASSOCIATED PROTEIN 3; POC1; purple acid phosphatase 3
Summary
Transcription factor interacting with photoreceptors phyA and phyB. Forms a ternary complex in vitro with G-box element of the promoters of LHY, CCA1. Acts as a negative regulator of phyB signalling. It degrades rapidly after irradiation of dark grown seedlings in a process controlled by phytochromes. Does not play a significant role in controlling light input and function of the circadian clockwork. Binds to G- and E-boxes, but not to other ACEs. Binds to anthocyanin biosynthetic genes in a light- and HY5-independent fashion. PIF3 function as a transcriptional activator can be functionally and mechanistically separated from its role in repression of PhyB mediated processes.

Genomic context

See PIF3 in Genome Data Viewer
Location:
chromosome: 1
Exon count:
8
Sequence:
Chromosome: 1; NC_003070.9 (3075768..3079654)

Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene NAD(P)-binding Rossmann-fold superfamily protein Neighboring gene hypothetical protein Neighboring gene ncRNA Neighboring gene myb domain protein 61

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

NM_001331836.1
NM_001331837.1
NM_001331839.1
NM_100824.3
NM_179295.3

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
DNA-binding transcription factor activity ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein dimerization activity IEA
Inferred from Electronic Annotation
more info
 
transcription regulatory region DNA binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription regulatory region sequence-specific DNA binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
de-etiolation IMP
Inferred from Mutant Phenotype
more info
PubMed 
gibberellic acid mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of anthocyanin metabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
red or far-red light signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
red, far-red light phototransduction IEA
Inferred from Electronic Annotation
more info
 
regulation of transcription, DNA-templated TAS
Traceable Author Statement
more info
PubMed 
response to red or far red light IMP
Inferred from Mutant Phenotype
more info
PubMed 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISM
Inferred from Sequence Model
more info
 

General protein information

Preferred Names
phytochrome interacting factor 3
NP_001318964.1
  • phytochrome interacting factor 3 (PIF3); CONTAINS InterPro DOMAIN/s: Helix-loop-helix DNA-binding domain (InterPro:IPR001092), Helix-loop-helix DNA-binding (InterPro:IPR011598); BEST Arabidopsis thaliana protein match is: phytochrome interacting factor 3-like 1 (TAIR:AT2G46970.1); Has 4326 Blast hits to 4310 proteins in 315 species: Archae - 0; Bacteria - 2; Metazoa - 732; Fungi - 183; Plants - 3377; Viruses - 7; Other Eukaryotes - 25 (source: NCBI BLink).
NP_001318965.1
  • phytochrome interacting factor 3 (PIF3); CONTAINS InterPro DOMAIN/s: Helix-loop-helix DNA-binding domain (InterPro:IPR001092), Helix-loop-helix DNA-binding (InterPro:IPR011598); BEST Arabidopsis thaliana protein match is: phytochrome interacting factor 3-like 1 (TAIR:AT2G46970.1); Has 4326 Blast hits to 4310 proteins in 315 species: Archae - 0; Bacteria - 2; Metazoa - 732; Fungi - 183; Plants - 3377; Viruses - 7; Other Eukaryotes - 25 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_003070.9 Reference assembly

    Range
    3075768..3079654
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001331838.1NP_001322700.1  phytochrome interacting factor 3 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O80536
  2. NM_001331837.1NP_001318965.1  phytochrome interacting factor 3 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O80536
  3. NM_001331836.1NP_001318964.1  phytochrome interacting factor 3 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O80536
  4. NM_001331839.1NP_001322701.1  phytochrome interacting factor 3 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O80536
  5. NM_179295.3NP_849626.1  phytochrome interacting factor 3 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_849626.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O80536
    Conserved Domains (1) summary
    smart00353
    Location:349397
    HLH; helix loop helix domain
  6. NM_100824.3NP_172424.1  phytochrome interacting factor 3 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_172424.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O80536
    Conserved Domains (1) summary
    smart00353
    Location:349397
    HLH; helix loop helix domain
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