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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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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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