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D8K8Z0

- D8K8Z0_NITWC

UniProt

D8K8Z0 - D8K8Z0_NITWC

Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Nitrosococcus watsoni (strain C-113)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 25 (01 Oct 2014)
      Sequence version 1 (05 Oct 2010)
      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 bindingi258 – 2581Magnesium or manganese 1UniRule annotation
    Metal bindingi271 – 2711Magnesium or manganese 1UniRule annotation
    Metal bindingi271 – 2711Magnesium or manganese 2UniRule annotation
    Metal bindingi273 – 2731Magnesium or manganese 2UniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi135 – 19056ATPUniRule 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

    BioCyciNWAT105559:GHXU-235-MONOMER.
    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
    Ordered Locus Names:Nwat_0230Imported
    OrganismiNitrosococcus watsoni (strain C-113)Imported
    Taxonomic identifieri105559 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaChromatialesChromatiaceaeNitrosococcus
    ProteomesiUP000000393: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotationSAAS annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    CytoplasmUniRule annotationSAAS annotation

    Structurei

    3D structure databases

    ProteinModelPortaliD8K8Z0.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini109 – 304196ATP-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.
    OMAiANDTQYR.

    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.
    IPR000291. D-Ala_lig_Van_CS.
    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.
    PS00843. DALA_DALA_LIGASE_1. 1 hit.
    PS00844. DALA_DALA_LIGASE_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    D8K8Z0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MIGRADAKAW GKVAVLMGGY SAEREISLKS GTAVLQALLR QGIEAHGIDV    50
    GKEVLTQLSK GEFTRAFIVL HGRGGEDGVI QGALETLNLP YTGSGVLGSA 100
    LTMDKLRSKQ LWRGMDLPTA DFSALTEDTD PAVIAADLGL PLIVKPAREG 150
    SSLGMMKVES TDALQSAYRE AAIFDTAVFA ERWLSGAEYT AAILADRVLP 200
    LIRLETPRVF YDFEAKYHAN TTHYFCPCGL SERQEHVLQA LALEAFQVLG 250
    ASGWGRVDLR CDEKAHPYLL EINTVPGMTD HSLVPMAAQA AGIGFDEMVL 300
    RILESSLERR MFQDGA 316
    Length:316
    Mass (Da):34,257
    Last modified:October 5, 2010 - v1
    Checksum:iFB5406A8D7355FA4
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP002086 Genomic DNA. Translation: ADJ27200.1.
    RefSeqiYP_003759521.1. NC_014315.1.

    Genome annotation databases

    EnsemblBacteriaiADJ27200; ADJ27200; Nwat_0230.
    GeneIDi9391682.
    KEGGinwa:Nwat_0230.
    PATRICi42232719. VBINitWat28885_0251.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP002086 Genomic DNA. Translation: ADJ27200.1 .
    RefSeqi YP_003759521.1. NC_014315.1.

    3D structure databases

    ProteinModelPortali D8K8Z0.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ADJ27200 ; ADJ27200 ; Nwat_0230 .
    GeneIDi 9391682.
    KEGGi nwa:Nwat_0230.
    PATRICi 42232719. VBINitWat28885_0251.

    Phylogenomic databases

    KOi K01921.
    OMAi ANDTQYR.

    Enzyme and pathway databases

    UniPathwayi UPA00219 .
    BioCyci NWAT105559:GHXU-235-MONOMER.

    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.
    IPR000291. D-Ala_lig_Van_CS.
    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.
    PS00843. DALA_DALA_LIGASE_1. 1 hit.
    PS00844. DALA_DALA_LIGASE_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete sequence of chromosome of Nitrosococcus watsoni C-113."
      US DOE Joint Genome Institute
      Lucas S., Copeland A., Lapidus A., Cheng J.-F., Bruce D., Goodwin L., Pitluck S., Malfatti S.A., Chain P.S.G., Land M., Hauser L., Kyrpides N., Ivanova N., Cambell M.A., Heidelberg J.F., Klotz M.G., Woyke T.
      Submitted (JUN-2010) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: C-113Imported.

    Entry informationi

    Entry nameiD8K8Z0_NITWC
    AccessioniPrimary (citable) accession number: D8K8Z0
    Entry historyi
    Integrated into UniProtKB/TrEMBL: October 5, 2010
    Last sequence update: October 5, 2010
    Last modified: October 1, 2014
    This is version 25 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