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    D-alanine-D-alanine ligase family [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 820031, updated on 18-Sep-2024

    Summary

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    Official Full Name
    D-alanine-D-alanine ligase family
    Primary source
    TAIR:AT3G08840
    Locus tag
    AT3G08840
    See related
    Araport:AT3G08840
    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
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    24
    Sequence:
    Chromosome: 3; NC_003074.8 (2679435..2686296, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene Galactose oxidase/kelch repeat superfamily protein Neighboring gene Pentatricopeptide repeat (PPR) superfamily protein Neighboring gene Regulatory-associated protein of TOR 1 Neighboring gene PYRIMIDINE 4

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Sorting signals, N-terminal modifications and abundance of the chloroplast proteome. Zybailov B, et al. PLoS One, 2008 Apr 23. PMID 18431481, Free PMC Article
    2. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    GeneRIFs: Gene References Into Functions

    General gene information

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    NM_001337773.1
    NM_001337774.1
    NM_001337775.1
    NM_001337776.1
    NM_001337777.1
    NM_001337778.1
    NM_001337779.1
    NM_001337780.1
    NM_001337781.1
    NM_001337782.1
    NM_111718.3
    NM_202529.2
    NM_202530.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables D-alanine-D-alanine ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast HDA PubMed 
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    D-alanine-D-alanine ligase family
    NP_001319501.1
    • D-alanine--D-alanine ligase family; FUNCTIONS IN: D-alanine-D-alanine ligase activity, catalytic activity, ATP binding; INVOLVED IN: peptidoglycan biosynthetic process; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: PreATP-grasp-like fold (InterPro:IPR016185), ATP-grasp fold (InterPro:IPR011761), ATP-grasp fold, subdomain 2 (InterPro:IPR013816), D-alanine--D-alanine ligase, N-terminal (InterPro:IPR011127), D-alanine--D-alanine ligase, C-terminal (InterPro:IPR011095), Pre-ATP-grasp fold (InterPro:IPR013817); Has 8394 Blast hits to 8341 proteins in 2507 species: Archae - 8; Bacteria - 6597; Metazoa - 3; Fungi - 8; Plants - 65; Viruses - 0; Other Eukaryotes - 1713 (source: NCBI BLink).
    NP_001319502.1
    • D-alanine--D-alanine ligase family; FUNCTIONS IN: D-alanine-D-alanine ligase activity, catalytic activity, ATP binding; INVOLVED IN: peptidoglycan biosynthetic process; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: D-alanine--D-alanine ligase/VANA/B/C, conserved site (InterPro:IPR000291), D-alanine--D-alanine ligase, C-terminal (InterPro:IPR011095), PreATP-grasp-like fold (InterPro:IPR016185), ATP-grasp fold (InterPro:IPR011761), ATP-grasp fold, subdomain 2 (InterPro:IPR013816), Pre-ATP-grasp fold (InterPro:IPR013817), D-alanine--D-alanine ligase, N-terminal (InterPro:IPR011127); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
    NP_974258.1
    • D-alanine--D-alanine ligase family; FUNCTIONS IN: D-alanine-D-alanine ligase activity, catalytic activity, ATP binding; INVOLVED IN: peptidoglycan biosynthetic process; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: D-alanine--D-alanine ligase/VANA/B/C, conserved site (InterPro:IPR000291), D-alanine--D-alanine ligase, C-terminal (InterPro:IPR011095), PreATP-grasp-like fold (InterPro:IPR016185), ATP-grasp fold (InterPro:IPR011761), ATP-grasp fold, subdomain 2 (InterPro:IPR013816), Pre-ATP-grasp fold (InterPro:IPR013817), D-alanine--D-alanine ligase, N-terminal (InterPro:IPR011127); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (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_003074.8 Reference assembly

      Range
      2679435..2686296 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001337773.1 → NP_001319501.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8GXA2, Q8LGB9
      Conserved Domains (3) summary
      PRK01966
      Location:74 → 442
      ddl; D-alanyl-alanine synthetase A; Reviewed
      pfam01820
      Location:79 → 194
      Dala_Dala_lig_N; D-ala D-ala ligase N-terminus
      cl17255
      Location:252 → 451
      ATP-grasp_4; ATP-grasp domain

    2. NM_202529.2 → NP_974258.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_974258.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9XA99, A0A654F6Y9, F4IYI8
      Conserved Domains (1) summary
      PRK01966
      Location:74 → 442
      ddl; D-alanine--D-alanine ligase

    3. NM_001337776.1 → NP_001319502.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4IYI9, Q8GWH2

    4. NM_001337777.1 → NP_001326479.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8GXA2, Q8LGB9
      Conserved Domains (3) summary
      PRK01966
      Location:74 → 442
      ddl; D-alanyl-alanine synthetase A; Reviewed
      pfam01820
      Location:79 → 194
      Dala_Dala_lig_N; D-ala D-ala ligase N-terminus
      cl17255
      Location:252 → 451
      ATP-grasp_4; ATP-grasp domain

    5. NM_001337781.1 → NP_001326475.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LPE0, Q8GWH2
      Conserved Domains (1) summary
      PRK01966
      Location:74 → 442
      ddl; D-alanine--D-alanine ligase

    6. NM_001337780.1 → NP_001326478.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LPE3, A0A5S9XA99

    7. NM_001337779.1 → NP_001326477.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4IYI9, Q8GWH2

    8. NM_001337778.1 → NP_001326480.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LPE5, Q8GWH2
      Conserved Domains (1) summary
      PRK01966
      Location:74 → 442
      ddl; D-alanine--D-alanine ligase

    9. NM_001337782.1 → NP_001326476.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LPE1, Q8GWH2
      Conserved Domains (1) summary
      PRK01966
      Location:74 → 442
      ddl; D-alanine--D-alanine ligase

    10. NM_202530.2 → NP_974259.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_974259.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4IYI9, Q8GWH2
      Conserved Domains (3) summary
      PRK01966
      Location:74 → 442
      ddl; D-alanyl-alanine synthetase A; Reviewed
      pfam01820
      Location:79 → 194
      Dala_Dala_lig_N; D-ala D-ala ligase N-terminus
      cl17255
      Location:252 → 451
      ATP-grasp_4; ATP-grasp domain

    11. NM_111718.3 → NP_566334.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_566334.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8GXA2, Q8LGB9
      Conserved Domains (3) summary
      PRK01966
      Location:74 → 442
      ddl; D-alanyl-alanine synthetase A; Reviewed
      pfam01820
      Location:79 → 194
      Dala_Dala_lig_N; D-ala D-ala ligase N-terminus
      cl17255
      Location:252 → 451
      ATP-grasp_4; ATP-grasp domain

    12. NM_001337774.1 → NP_001326473.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VHR6, A0A1I9LPD8, A0A384KXJ0, Q8LGB9

    13. NM_001337775.1 → NP_001326474.1  D-alanine-D-alanine ligase family [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VFZ2, A0A1I9LPD9
    Nucleotide Protein
    Heading Accession and Version

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