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NPH4 Transcriptional factor B3 family protein / auxin-responsive factor AUX/IAA-like protein [ Arabidopsis thaliana (thale cress) ]

Gene ID: 832196, updated on 18-Sep-2024

Summary

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Official Symbol
NPH4
Official Full Name
Transcriptional factor B3 family protein / auxin-responsive factor AUX/IAA-like protein
Primary source
TAIR:AT5G20730
Locus tag
AT5G20730
See related
Araport:AT5G20730
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Arabidopsis thaliana (ecotype: Columbia)
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as
ARF7; AUXIN RESPONSE FACTOR 7; AUXIN-REGULATED TRANSCRIPTIONAL ACTIVATOR 7; AUXIN-RESPONSIVE TRANSCRIPTIONAL ACTIVATOR 7; BIP; BIPOSTO; IAA21; IAA23; IAA25; indole-3-acetic acid inducible 21; indole-3-acetic acid inducible 23; indole-3-acetic acid inducible 25; MASSUGU 1; MSG1; NON-PHOTOTROPHIC HYPOCOTYL; T1M15.130; T1M15_130; TIR5; TRANSPORT INHIBITOR RESPONSE 5
Summary
Encodes an auxin-regulated transcriptional activator. Activates expression of IAA1 and IAA9 in the presence of auxin. Mutants affect blue light and gravitropic and auxin mediated growth responses. Together with AUX19, it is involved in the response to ethylene. In the arf7 arf19 double mutant, several auxin-responsive genes (e.g. IAA5, LBD16, LBD29 and LBD33) are no longer upregulated by auxin.
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Genomic context

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See NPH4 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
13
Sequence:
Chromosome: 5; NC_003076.8 (7016445..7022179, complement)

Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene beta-galactosidase 7 Neighboring gene ncRNA Neighboring gene chaperonin 20 Neighboring gene ncRNA Neighboring gene Plant invertase/pectin methylesterase inhibitor superfamily protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003076.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. The NPH4 locus encodes the auxin response factor ARF7, a conditional regulator of differential growth in aerial Arabidopsis tissue. Harper RM, et al. Plant Cell, 2000 May. PMID 10810148, Free PMC Article
  2. Root branching toward water involves posttranslational modification of transcription factor ARF7. Orosa-Puente B, et al. Science, 2018 Dec 21. PMID 30573626
  3. Defining a two-pronged structural model for PB1 (Phox/Bem1p) domain interaction in plant auxin responses. Korasick DA, et al. J Biol Chem, 2015 May 15. PMID 25839233, Free PMC Article
  4. AUXIN RESPONSE FACTOR7 restores the expression of auxin-responsive genes in mutant Arabidopsis leaf mesophyll protoplasts. Wang S, et al. Plant Cell, 2005 Jul. PMID 15923351, Free PMC Article
  5. NPH4/ARF7 and ARF19 promote leaf expansion and auxin-induced lateral root formation. Wilmoth JC, et al. Plant J, 2005 Jul. PMID 15960621

See all (44) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. NBR1-mediated selective autophagy of ARF7 modulates root branching.
    Title: NBR1-mediated selective autophagy of ARF7 modulates root branching.
  2. ERF1 inhibits lateral root emergence by promoting local auxin accumulation and repressing ARF7 expression.
    Title: ERF1 inhibits lateral root emergence by promoting local auxin accumulation and repressing ARF7 expression.
  3. LBD18 and IAA14 antagonistically interact with ARF7 via the invariant Lys and acidic residues of the OPCA motif in the PB1 domain.
    Title: LBD18 and IAA14 antagonistically interact with ARF7 via the invariant Lys and acidic residues of the OPCA motif in the PB1 domain.
  4. ARF7 and ARF19 proteins accumulate in micron-sized assemblies within the cytoplasm of tissues with attenuated auxin responsiveness.
    Title: Nucleo-cytoplasmic Partitioning of ARF Proteins Controls Auxin Responses in Arabidopsis thaliana.
  5. Transcription factors AUXIN RESPONSE FACTOR7 (ARF7) and ARF19 mutants showed down-regulated expression of PHOSPHATE STARVATION RESPONSE1 (PHR1) and downstream Pi starvation-induced genes in roots.
    Title: The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots.
  6. Epistatic interaction of NPH4 and IAR2 genes in Arabidopsis roots has been reported.
    Title: Features inheritance of root system Arabidopsis thaliana (L.) Heynh. the interaction of genes CTR1 AND ALF3, NPH4 and IAR2.
  7. hydropatterning is dependent on auxin response factor ARF7
    Title: Root branching toward water involves posttranslational modification of transcription factor ARF7.
  8. ARF7 and FLP transcription factors jointly form a coherent feed-forward motif that mediates the auxin-responsive PIN3 transcription in planta to steer the early steps of lateral root formation.
    Title: A coherent transcriptional feed-forward motif model for mediating auxin-sensitive PIN3 expression during lateral root development.
  9. Analyses of the expression pattern of ARF7 and ARF5 targets suggest that this patterning mechanism controls flanking and central zone specification in Arabidopsis LR primordia.
    Title: Inference of the Arabidopsis lateral root gene regulatory network suggests a bifurcation mechanism that defines primordia flanking and central zones.
  10. the thermodynamic and structural basis for Arabidopsis thaliana ARF7 PB1 domain self-interaction.
    Title: Defining a two-pronged structural model for PB1 (Phox/Bem1p) domain interaction in plant auxin responses.
Submit: New GeneRIF Correction See all GeneRIFs (19)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Miscellaneous features

  • Loc: c7021598-7021563 AT5G20730.uORF2
  • Loc: c7021807-7021772 AT5G20730.uORF1
NM_122080.3
NM_180715.1
NM_180716.3

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within blue light signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in callus formation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within gravitropism TAS
Traceable Author Statement
more info
 PubMed 
acts_upstream_of_or_within lateral root development IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within lateral root formation IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within leaf development IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within phototropism IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of DNA-templated transcription TAS
Traceable Author Statement
more info
 PubMed 
acts_upstream_of_or_within regulation of growth TAS
Traceable Author Statement
more info
 PubMed 
acts_upstream_of_or_within response to auxin IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within response to ethylene IGI
Inferred from Genetic Interaction
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISM
Inferred from Sequence Model
more info
  

General protein information

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Preferred Names
Transcriptional factor B3 family protein / auxin-responsive factor AUX/IAA-like protein
NP_568400.2
  • NON-PHOTOTROPHIC HYPOCOTYL (NPH4); CONTAINS InterPro DOMAIN/s: Aux/IAA-ARF-dimerisation (InterPro:IPR011525), Transcriptional factor B3 (InterPro:IPR003340), AUX/IAA protein (InterPro:IPR003311), Auxin response factor (InterPro:IPR010525); BEST Arabidopsis thaliana protein match is: auxin response factor 19 (TAIR:AT1G19220.1); Has 127441 Blast hits to 56171 proteins in 2083 species: Archae - 44; Bacteria - 12539; Metazoa - 44967; Fungi - 11870; Plants - 9839; Viruses - 384; Other Eukaryotes - 47798 (source: NCBI BLink).
NP_851046.1
  • NON-PHOTOTROPHIC HYPOCOTYL (NPH4); CONTAINS InterPro DOMAIN/s: Aux/IAA-ARF-dimerisation (InterPro:IPR011525), Transcriptional factor B3 (InterPro:IPR003340), AUX/IAA protein (InterPro:IPR003311), Auxin response factor (InterPro:IPR010525); BEST Arabidopsis thaliana protein match is: auxin response factor 19 (TAIR:AT1G19220.1); Has 127290 Blast hits to 55954 proteins in 2093 species: Archae - 44; Bacteria - 12651; Metazoa - 44969; Fungi - 11875; Plants - 9571; Viruses - 386; Other Eukaryotes - 47794 (source: NCBI BLink).
NP_851047.1
  • NON-PHOTOTROPHIC HYPOCOTYL (NPH4); CONTAINS InterPro DOMAIN/s: Aux/IAA-ARF-dimerisation (InterPro:IPR011525), Transcriptional factor B3 (InterPro:IPR003340), AUX/IAA protein (InterPro:IPR003311), Auxin response factor (InterPro:IPR010525); BEST Arabidopsis thaliana protein match is: auxin response factor 19 (TAIR:AT1G19220.1); Has 127440 Blast hits to 56170 proteins in 2083 species: Archae - 44; Bacteria - 12539; Metazoa - 44967; Fungi - 11870; Plants - 9838; Viruses - 384; Other Eukaryotes - 47798 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

  1. NC_003076.8 Reference assembly

    Range
    7016445..7022179 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_180716.3 → NP_851047.1  Transcriptional factor B3 family protein / auxin-responsive factor AUX/IAA-like protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_851047.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O24411, P93022, P93023, Q0WWZ8, Q5IRX8, Q8RXZ7, Q9LCZ5, Q9SBK4, Q9SYQ6
    UniProtKB/TrEMBL
    A0A654G3B4
    Conserved Domains (3) summary
    pfam02309
    Location:1049 → 1121
    AUX_IAA; AUX/IAA family
    pfam02362
    Location:127 → 229
    B3; B3 DNA binding domain
    pfam06507
    Location:261 → 335
    Auxin_resp; Auxin response factor

  2. NM_122080.3 → NP_568400.2  Transcriptional factor B3 family protein / auxin-responsive factor AUX/IAA-like protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_568400.2

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A654G3B4, F4K5M5
    Conserved Domains (3) summary
    pfam02309
    Location:1050 → 1122
    AUX_IAA; AUX/IAA family
    pfam02362
    Location:127 → 229
    B3; B3 DNA binding domain
    pfam06507
    Location:261 → 336
    Auxin_resp; Auxin response factor

  3. NM_180715.1 → NP_851046.1  Transcriptional factor B3 family protein / auxin-responsive factor AUX/IAA-like protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_851046.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A654G3B4
    Conserved Domains (3) summary
    pfam02309
    Location:1050 → 1122
    AUX_IAA; AUX/IAA family
    pfam02362
    Location:127 → 229
    B3; B3 DNA binding domain
    pfam06507
    Location:261 → 336
    Auxin_resp; Auxin response factor
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P93022.2

Gene LinkOut

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