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J9YVG8

- J9YVG8_9PROT

UniProt

J9YVG8 - J9YVG8_9PROT

Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
alpha proteobacterium HIMB5
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 12 (01 Oct 2014)
      Sequence version 1 (28 Nov 2012)
      Previous versions | rss
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    Functioni

    Cell wall formation.UniRule annotationSAAS annotation

    Catalytic activityi

    ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine.UniRule annotationSAAS annotation

    Cofactori

    Binds 2 magnesium or manganese ions per subunit.UniRule annotationSAAS annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi252 – 2521Magnesium or manganese 1UniRule annotation
    Metal bindingi264 – 2641Magnesium or manganese 1UniRule annotation
    Metal bindingi264 – 2641Magnesium or manganese 2UniRule annotation
    Metal bindingi266 – 2661Magnesium or manganese 2UniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi130 – 18354ATPUniRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-HAMAP
    2. D-alanine-D-alanine ligase activity Source: UniProtKB-HAMAP
    3. magnesium ion binding Source: UniProtKB-HAMAP
    4. manganese ion binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. peptidoglycan biosynthetic process Source: UniProtKB-HAMAP
    2. regulation of cell shape Source: UniProtKB-KW

    Keywords - Molecular functioni

    LigaseUniRule annotationSAAS annotationImported

    Keywords - Biological processi

    Cell shape, Cell wall biogenesis/degradationUniRule annotationSAAS annotation, Peptidoglycan synthesisUniRule annotationSAAS annotation

    Keywords - Ligandi

    ATP-bindingUniRule annotationSAAS annotation, MagnesiumUniRule annotationSAAS annotation, ManganeseUniRule annotationSAAS annotation, Metal-bindingUniRule annotationSAAS annotation, Nucleotide-binding

    Enzyme and pathway databases

    UniPathwayiUPA00219.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    D-alanine--D-alanine ligaseUniRule annotation (EC:6.3.2.4UniRule annotation)
    Alternative name(s):
    D-Ala-D-Ala ligaseUniRule annotation
    D-alanylalanine synthetaseUniRule annotation
    Gene namesi
    Name:ddlUniRule annotation
    ORF Names:HIMB5_00002020Imported
    Organismialpha proteobacterium HIMB5Imported
    Taxonomic identifieri859653 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaSAR11 cluster
    ProteomesiUP000006098: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotationSAAS annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    CytoplasmUniRule annotationSAAS annotation

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini100 – 297198ATP-graspUniRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the D-alanine--D-alanine ligase family.UniRule annotation
    Contains 1 ATP-grasp domain.UniRule annotation
    Contains ATP-grasp domain.SAAS annotation

    Phylogenomic databases

    KOiK01921.

    Family and domain databases

    Gene3Di3.30.1490.20. 1 hit.
    3.30.470.20. 2 hits.
    3.40.50.20. 1 hit.
    HAMAPiMF_00047. Dala_Dala_lig.
    InterProiIPR011761. ATP-grasp.
    IPR013815. ATP_grasp_subdomain_1.
    IPR013816. ATP_grasp_subdomain_2.
    IPR005905. D_ala_D_ala.
    IPR011095. Dala_Dala_lig_C.
    IPR011127. Dala_Dala_lig_N.
    IPR016185. PreATP-grasp_dom.
    [Graphical view]
    PANTHERiPTHR23132. PTHR23132. 1 hit.
    PfamiPF07478. Dala_Dala_lig_C. 1 hit.
    PF01820. Dala_Dala_lig_N. 2 hits.
    [Graphical view]
    SUPFAMiSSF52440. SSF52440. 1 hit.
    TIGRFAMsiTIGR01205. D_ala_D_alaTIGR. 1 hit.
    PROSITEiPS50975. ATP_GRASP. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    J9YVG8-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKKKILILSG GISKERSISL DTGNQVAKEL KKKYSVKICE PNNDLEKNIK    50
    KFKPHKIFNA LHGQFGEDGY IQTIIENYKI PYTHSGVIAS AIAMDKDISK 100
    RIFLKNKILT PKYINFTFDK NPKELTKTVE KILKFPVVVK PINEGSSVNV 150
    FICTKKNFLK KVELLKSYKK IMIEEFIGGR EIQVAILGKK KLGAIELKPK 200
    RKFYDYTAKY KKSAKTKHII PVQLPKKKLD LVLNISLKAH NLIGCKGVTR 250
    SDFKFYNNKF YLLEINTQPG MTKLSLVPEI AAYRGISFFD LLEWMLKDAS 300
    INR 303
    Length:303
    Mass (Da):34,751
    Last modified:November 28, 2012 - v1
    Checksum:i35B767FF6C9770C4
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP003809 Genomic DNA. Translation: AFS46971.1.
    RefSeqiWP_014952803.1. NC_018643.1.
    YP_006756148.1. NC_018643.1.

    Genome annotation databases

    EnsemblBacteriaiAFS46971; AFS46971; HIMB5_00002020.
    GeneIDi13673464.
    KEGGiapm:HIMB5_00002020.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP003809 Genomic DNA. Translation: AFS46971.1 .
    RefSeqi WP_014952803.1. NC_018643.1.
    YP_006756148.1. NC_018643.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AFS46971 ; AFS46971 ; HIMB5_00002020 .
    GeneIDi 13673464.
    KEGGi apm:HIMB5_00002020.

    Phylogenomic databases

    KOi K01921.

    Enzyme and pathway databases

    UniPathwayi UPA00219 .

    Family and domain databases

    Gene3Di 3.30.1490.20. 1 hit.
    3.30.470.20. 2 hits.
    3.40.50.20. 1 hit.
    HAMAPi MF_00047. Dala_Dala_lig.
    InterProi IPR011761. ATP-grasp.
    IPR013815. ATP_grasp_subdomain_1.
    IPR013816. ATP_grasp_subdomain_2.
    IPR005905. D_ala_D_ala.
    IPR011095. Dala_Dala_lig_C.
    IPR011127. Dala_Dala_lig_N.
    IPR016185. PreATP-grasp_dom.
    [Graphical view ]
    PANTHERi PTHR23132. PTHR23132. 1 hit.
    Pfami PF07478. Dala_Dala_lig_C. 1 hit.
    PF01820. Dala_Dala_lig_N. 2 hits.
    [Graphical view ]
    SUPFAMi SSF52440. SSF52440. 1 hit.
    TIGRFAMsi TIGR01205. D_ala_D_alaTIGR. 1 hit.
    PROSITEi PS50975. ATP_GRASP. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE.
      Strain: HIMB5Imported.

    Entry informationi

    Entry nameiJ9YVG8_9PROT
    AccessioniPrimary (citable) accession number: J9YVG8
    Entry historyi
    Integrated into UniProtKB/TrEMBL: November 28, 2012
    Last sequence update: November 28, 2012
    Last modified: October 1, 2014
    This is version 12 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteomeImported

    External Data

    Dasty 3