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    PHYLLO 2-oxoglutarate decarboxylase/hydro-lyase/magnesium ion-binding protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 843222, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PHYLLO
    Official Full Name
    2-oxoglutarate decarboxylase/hydro-lyase/magnesium ion-binding protein
    Primary source
    TAIR:AT1G68890
    Locus tag
    AT1G68890
    See related
    Araport:AT1G68890
    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
    T6L1.7; T6L1_7
    Summary
    Homologous to the four eubacterial men genes involved in menanoquinone biosynthesis. Studies of mutants defective in this gene demonstrated its involvement in phylloquinone biosynthesis in Arabidopsis.
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    Genomic context

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    See PHYLLO in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    29
    Sequence:
    Chromosome: 1; NC_003070.9 (25896854..25906714)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene chaperonin 60 subunit beta Neighboring gene ncRNA Neighboring gene basic leucine-zipper 8 Neighboring gene Defensin-like (DEFL) family protein Neighboring gene Defensin-like (DEFL) 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. A plant locus essential for phylloquinone (vitamin K1) biosynthesis originated from a fusion of four eubacterial genes. Gross J, et al. J Biol Chem, 2006 Jun 23. PMID 16617180
    2. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature, 2000 Dec 14. PMID 11130712

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Homology

    NM_001334389.1
    NM_105563.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables O-succinylbenzoate synthase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables thiamine pyrophosphate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in amino acid catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in menaquinone biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within photosystem I stabilization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within phylloquinone biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    2-oxoglutarate decarboxylase/hydro-lyase/magnesium ion-binding protein
    NP_177055.2
    • magnesium ion binding;thiamin pyrophosphate binding;hydro-lyases;catalytics;2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthases; FUNCTIONS IN: 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity, hydro-lyase activity, magnesium ion binding, thiamin pyrophosphate binding, catalytic activity; INVOLVED IN: phylloquinone biosynthetic process, photosystem I stabilization; LOCATED IN: chloroplast; EXPRESSED IN: shoot, leaf whorl; CONTAINS InterPro DOMAIN/s: Menaquinone biosynthesis protein MenD (InterPro:IPR004433), Alpha/beta hydrolase fold-1 (InterPro:IPR000073), Mandelate racemase/muconate lactonizing enzyme, C-terminal (InterPro:IPR013342), Thiamine pyrophosphate enzyme, C-terminal TPP-binding (InterPro:IPR011766), Thiamine pyrophosphate enzyme, N-terminal TPP-binding domain (InterPro:IPR012001), O-succinylbenzoic acid (OSB) synthetase, gamma proteobacteria/archaea (InterPro:IPR010196), Mandelate racemase/muconate lactonizing enzyme, conserved site (InterPro:IPR018110); BEST Arabidopsis thaliana protein match is: isochorismate synthase 2 (TAIR:AT1G18870.2); Has 22452 Blast hits to 22188 proteins in 2448 species: Archae - 403; Bacteria - 16894; Metazoa - 237; Fungi - 200; Plants - 484; Viruses - 7; Other Eukaryotes - 4227 (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
      25896854..25906714
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_105563.5 → NP_177055.2  2-oxoglutarate decarboxylase/hydro-lyase/magnesium ion-binding protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_177055.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q0WV21, Q15KI9, Q15KJ0, Q9CAB1, Q9CAB2
      UniProtKB/TrEMBL
      A0A5S9WST8
      Conserved Domains (7) summary
      cd07037
      Location:368 → 529
      TPP_PYR_MenD; Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1-carboxylate synthase (MenD) and related proteins
      PLN02980
      Location:67 → 1711
      PLN02980; 2-oxoglutarate decarboxylase/ hydro-lyase/ magnesium ion binding / thiamin pyrophosphate binding
      cd02009
      Location:756 → 933
      TPP_SHCHC_synthase; Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key ...
      cl10555
      Location:259 → 315
      Chorismate_bind; chorismate binding enzyme
      cl21457
      Location:1001 → 1350
      TIM_phosphate_binding; TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate ...
      cl21494
      Location:1436 → 1692
      Abhydrolase; alpha/beta hydrolases
      cl22435
      Location:588 → 777
      TPP_enzyme_M; Thiamine pyrophosphate enzyme, central domain

    2. NM_001334389.1 → NP_001322314.1  2-oxoglutarate decarboxylase/hydro-lyase/magnesium ion-binding protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8ATL1, A0A7G2E7H2
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q15KI9.2

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