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    LOC4332231 probable 4-hydroxy-tetrahydrodipicolinate reductase 2, chloroplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4332231, updated on 3-Dec-2024

    Summary

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    Gene symbol
    LOC4332231
    Gene description
    probable 4-hydroxy-tetrahydrodipicolinate reductase 2, chloroplastic
    Locus tag
    OSNPB_030245100
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Also known as
    DAPB2; OsJ_10116; OsJ_009732
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    Genomic context

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    See LOC4332231 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (7721197..7725483)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (7671273..7675887)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene transcription repressor MYB6 Neighboring gene chaperone protein dnaJ 11, chloroplastic Neighboring gene proline-rich protein 2 Neighboring gene proline-rich protein 4 Neighboring gene uncharacterized LOC4332235

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables 4-hydroxy-tetrahydrodipicolinate reductase IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables NADPH binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in diaminopimelate biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in lysine biosynthetic process via diaminopimelate IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast stroma IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable 4-hydroxy-tetrahydrodipicolinate reductase 2, chloroplastic
    Names
    HTPA reductase 2
    LOC_Os03g14120
    NP_001389051.1
    XP_015631811.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001402122.1 → NP_001389051.1  probable 4-hydroxy-tetrahydrodipicolinate reductase 2, chloroplastic

      Status: VALIDATED

      Source sequence(s)
      AK059346, CB000385, CI638196
      UniProtKB/TrEMBL
      A0A0P0VVD4, B7E3L9

    RNA

    1. NR_175002.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK059346, CB000385, CI538936, CI638196

    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

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

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      7721197..7725483
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015776325.3 → XP_015631811.1  probable 4-hydroxy-tetrahydrodipicolinate reductase 2, chloroplastic isoform X1

      UniProtKB/Swiss-Prot
      A3AG10, B7ESW8, Q0DTI8, Q10P66, Q10P67
      UniProtKB/TrEMBL
      A0A0P0VVD4
      Conserved Domains (3) summary
      PLN02775
      Location:40 → 325
      PLN02775; Probable dihydrodipicolinate reductase
      pfam01113
      Location:52 → 175
      DapB_N; Dihydrodipicolinate reductase, N-terminus
      pfam05173
      Location:179 → 319
      DapB_C; Dihydrodipicolinate reductase, C-terminus

    RNA

    1. XR_001544691.3 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q10P67.1 GenPept UniProtKB/Swiss-Prot:Q10P67

    Gene LinkOut

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