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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

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