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    GN sec7 domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 837958, updated on 18-Sep-2024

    Summary

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    Official Symbol
    GN
    Official Full Name
    sec7 domain-containing protein
    Primary source
    TAIR:AT1G13980
    Locus tag
    AT1G13980
    See related
    Araport:AT1G13980
    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
    EMB30; EMBRYO DEFECTIVE 30; F16A14.20; GNOM; VAN7; VASCULAR NETWORK 7
    Summary
    Encodes a GDP/GTP exchange factor for small G-proteins of the ADP ribosylation factor (RAF) class, and as regulator of intracellular trafficking. Homologous to Sec7p and YEC2 from yeast. Involved in the specification of apical-basal pattern formation. Essential for cell division, expansion and adhesion. It appears that heteotypic binding between the DCB and C-terminal domains of two GNOM proteins is required for membrane association, however, GNOM appears to exist predominantly as a heterodimer formed through DCB-DCB interactions.
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    Genomic context

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    Location:
    chromosome: 1
    Exon count:
    3
    Sequence:
    Chromosome: 1; NC_003070.9 (4788463..4794654)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene eukaryotic elongation factor 5A-1 Neighboring gene WRKY DNA-binding protein 4 Neighboring gene beta-hexosaminidase (DUF1336) Neighboring gene plant/protein Neighboring gene VH1-interacting kinase Neighboring gene emp24/gp25L/p24 family/GOLD family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. EMB30 is essential for normal cell division, cell expansion, and cell adhesion in Arabidopsis and encodes a protein that has similarity to Sec7. Shevell DE, et al. Cell, 1994 Jul 1. PMID 8020095
    2. Coordination of apical and basal embryo development revealed by tissue-specific GNOM functions. Wolters H, et al. Development, 2011 Jan. PMID 21138974
    3. The Arabidopsis GNOM ARF-GEF mediates endosomal recycling, auxin transport, and auxin-dependent plant growth. Geldner N, et al. Cell, 2003 Jan 24. PMID 12553910
    4. GNOM/FEWER ROOTS is required for the establishment of an auxin response maximum for arabidopsis lateral root initiation. Okumura K, et al. Plant Cell Physiol, 2013 Mar. PMID 23390202, Free PMC Article
    5. Cell wall alterations in the arabidopsis emb30 mutant. Shevell DE, et al. Plant Cell, 2000 Nov. PMID 11090208, Free PMC Article

    See all (34) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Genetic Interaction between Arabidopsis SUR2/CYP83B1 and GNOM Indicates the Importance of Stabilizing Local Auxin Accumulation in Lateral Root Initiation.
      Title: Genetic Interaction between Arabidopsis SUR2/CYP83B1 and GNOM Indicates the Importance of Stabilizing Local Auxin Accumulation in Lateral Root Initiation.
    2. MIZU-KUSSEI1 (MIZ1) and GNOM/MIZ2 control not only positive hydrotropism but also phototropism in Arabidopsis roots.
      Title: MIZU-KUSSEI1 (MIZ1) and GNOM/MIZ2 control not only positive hydrotropism but also phototropism in Arabidopsis roots.
    3. Coordinated Activation of ARF1 GTPases by ARF-GEF GNOM Dimers Is Essential for Vesicle Trafficking in Arabidopsis.
      Title: Coordinated Activation of ARF1 GTPases by ARF-GEF GNOM Dimers Is Essential for Vesicle Trafficking in Arabidopsis.
    4. Cell wall remodeling and vesicle trafficking mediate the root clock in Arabidopsis.
      Title: Cell wall remodeling and vesicle trafficking mediate the root clock in Arabidopsis.
    5. GNOM preferentially localizes to a subdomain of the Golgi apparatus and redefined a role of this organelle in regulating endosomal function.
      Title: Insights into the localization and function of the membrane trafficking regulator GNOM ARF-GEF at the Golgi apparatus in Arabidopsis.
    6. data confirm a role for GNOM in endoplasmic reticulum (ER)-Golgi trafficking and reveal that a GNL1/GNOM-mediated early secretory pathway selectively regulates PIN1 basal polarity establishment in a manner essential for normal plant development
      Title: An early secretory pathway mediated by GNOM-LIKE 1 and GNOM is essential for basal polarity establishment in Arabidopsis thaliana.
    7. GNOM-dependent auxin transport could affect local auxin biosynthesis.
      Title: Inducible knock-down of GNOM during root formation reveals tissue-specific response to auxin transport and its modulation of local auxin biosynthesis.
    8. Therefore, an unknown GNOM-mediated vesicle trafficking system may mediate root hydrotropism and phototropism independently of PIN trafficking.
      Title: GNOM regulates root hydrotropism and phototropism independently of PIN-mediated auxin transport.
    9. Both PIN3 polarization and hypocotyl bending require the activity of the trafficking regulator GNOM and the protein kinase PINOID.
      Title: Polarization of PIN3-dependent auxin transport for hypocotyl gravitropic response in Arabidopsis thaliana.
    10. GNOM is required for the establishment of the auxin response maximum for lateral root (LR) initiation, probably through the regulation of local and global auxin distribution in the root.
      Title: GNOM/FEWER ROOTS is required for the establishment of an auxin response maximum for arabidopsis lateral root initiation.
    Submit: New GeneRIF Correction See all GeneRIFs (22)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001198062.1
    NM_101264.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables GTP:GDP antiporter activity IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    enables guanyl-nucleotide exchange factor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within basipetal auxin transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cell adhesion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cell wall organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cellular response to cold IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within cytokinesis by cell plate formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within embryo development ending in seed dormancy IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within embryonic pattern specification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within endocytosis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in endosome transport via multivesicular body sorting pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within establishment of planar polarity IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within lateral root formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within longitudinal axis specification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within phloem or xylem histogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of ARF protein signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of vesicle targeting, to, from or within Golgi TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within root hair cell differentiation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within unidimensional cell growth IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in vesicle-mediated transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    sec7 domain-containing protein
    NP_001184991.1
    • GNOM (GN); FUNCTIONS IN: protein homodimerization activity, GTP:GDP antiporter activity; INVOLVED IN: in 13 processes; LOCATED IN: intracellular; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: SEC7-like (InterPro:IPR000904); BEST Arabidopsis thaliana protein match is: GNOM-like 1 (TAIR:AT5G39500.1).
    NP_172851.1
    • GNOM (GN); FUNCTIONS IN: protein homodimerization activity, GTP:GDP antiporter activity; INVOLVED IN: in 13 processes; LOCATED IN: intracellular; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: SEC7-like (InterPro:IPR000904); BEST Arabidopsis thaliana protein match is: GNOM-like 1 (TAIR:AT5G39500.1); Has 2876 Blast hits to 2436 proteins in 245 species: Archae - 0; Bacteria - 32; Metazoa - 1502; Fungi - 690; Plants - 264; Viruses - 0; Other Eukaryotes - 388 (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_003070.9 Reference assembly

      Range
      4788463..4794654
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001198062.1 → NP_001184991.1  sec7 domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001184991.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q38883, Q42510, Q56ZY3
      UniProtKB/TrEMBL
      A0A178WBP7, A0A5S9UA99, A0A654EEN7
      Conserved Domains (5) summary
      PLN03076
      Location:351 → 1301
      PLN03076; ARF guanine nucleotide exchange factor (ARF-GEF); Provisional
      pfam01369
      Location:562 → 745
      Sec7; Sec7 domain
      pfam12783
      Location:313 → 470
      Sec7_N; Guanine nucleotide exchange factor in Golgi transport N-terminal
      pfam16206
      Location:1185 → 1313
      Mon2_C; C-terminal region of Mon2 protein
      pfam16213
      Location:93 → 223
      DCB; Dimerization and cyclophilin-binding domain of Mon2

    2. NM_101264.4 → NP_172851.1  sec7 domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_172851.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q38883, Q42510, Q56ZY3
      UniProtKB/TrEMBL
      A0A178WBP7, A0A5S9UA99, A0A654EEN7
      Conserved Domains (5) summary
      PLN03076
      Location:351 → 1301
      PLN03076; ARF guanine nucleotide exchange factor (ARF-GEF); Provisional
      pfam01369
      Location:562 → 745
      Sec7; Sec7 domain
      pfam12783
      Location:313 → 470
      Sec7_N; Guanine nucleotide exchange factor in Golgi transport N-terminal
      pfam16206
      Location:1185 → 1313
      Mon2_C; C-terminal region of Mon2 protein
      pfam16213
      Location:93 → 223
      DCB; Dimerization and cyclophilin-binding domain of Mon2
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q42510.1

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