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E4TD77

- E4TD77_RIEAD

UniProt

E4TD77 - E4TD77_RIEAD

Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Riemerella anatipestifer (strain ATCC 11845 / DSM 15868 / JCM 9532 / NCTC 11014)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 28 (01 Oct 2014)
      Sequence version 1 (08 Feb 2011)
      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 bindingi277 – 2771Magnesium or manganese 1UniRule annotation
    Metal bindingi289 – 2891Magnesium or manganese 1UniRule annotation
    Metal bindingi289 – 2891Magnesium or manganese 2UniRule annotation
    Metal bindingi291 – 2911Magnesium or manganese 2UniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi151 – 20656ATPUniRule 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

    BioCyciRANA693978:GHF6-1627-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:Riean_1579Imported
    ORF Names:RA0C_1871Imported
    OrganismiRiemerella anatipestifer (strain ATCC 11845 / DSM 15868 / JCM 9532 / NCTC 11014)Imported
    Taxonomic identifieri693978 [NCBI]
    Taxonomic lineageiBacteriaBacteroidetesFlavobacteriiaFlavobacterialesFlavobacteriaceaeRiemerella
    ProteomesiUP000008719: Chromosome, UP000010093: 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
    Domaini123 – 322200ATP-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

    HOGENOMiHOG000011592.
    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.
    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. 1 hit.
    [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.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    E4TD77-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSKKNIAVVM GGYSDEYKVS LKSGQLIYDS LDRDLYNVYK VVVLKEGWFY    50
    LDENEAKLPI QKGDFSVNLP SGEVLRFDVC FNTIHGTPGE NGVLQAYWDA 100
    IGQKYTGCDF YQSALTFNKK DTLAVLAKYG IPSAKSFYIK KGEAYDKDKI 150
    INELKLPLFV KPNQSGSSLG ISKVKEVSEF EAALEKAFLE DDEVLVESFL 200
    DGMEVSVGVL DYKGETIVLG ITEIIPETEF FDYEAKYQGA SQEITPARLD 250
    EATRLRVEEV AKRAYNSLGM KGFSRSEYII MNGVPYMLEM NTNPGFSPAS 300
    ILPQQARIYG ISIKDLCGNE VEKALAK 327
    Length:327
    Mass (Da):36,504
    Last modified:February 8, 2011 - v1
    Checksum:iCC0D89F980A0ACE6
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP002346 Genomic DNA. Translation: ADQ82736.1.
    CP003388 Genomic DNA. Translation: AFD56746.1.
    RefSeqiWP_013447134.1. NC_017045.1.
    YP_004046242.1. NC_014738.1.
    YP_005395289.1. NC_017045.1.

    Genome annotation databases

    EnsemblBacteriaiADQ82736; ADQ82736; Riean_1579.
    AFD56746; AFD56746; RA0C_1871.
    GeneIDi10002357.
    11997644.
    KEGGirai:RA0C_1871.
    ran:Riean_1579.
    PATRICi45353953. VBIRieAna155424_1607.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP002346 Genomic DNA. Translation: ADQ82736.1 .
    CP003388 Genomic DNA. Translation: AFD56746.1 .
    RefSeqi WP_013447134.1. NC_017045.1.
    YP_004046242.1. NC_014738.1.
    YP_005395289.1. NC_017045.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ADQ82736 ; ADQ82736 ; Riean_1579 .
    AFD56746 ; AFD56746 ; RA0C_1871 .
    GeneIDi 10002357.
    11997644.
    KEGGi rai:RA0C_1871.
    ran:Riean_1579.
    PATRICi 45353953. VBIRieAna155424_1607.

    Phylogenomic databases

    HOGENOMi HOG000011592.
    KOi K01921.

    Enzyme and pathway databases

    UniPathwayi UPA00219 .
    BioCyci RANA693978:GHF6-1627-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. 1 hit.
    [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.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 11845 / DSM 15868 / JCM 9532 / NCTC 11014Imported and DSM 15868Imported.
    2. "Complete genome sequence of Riemerella anatipestifer reference strain."
      Wang X., Zhu D., Wang M., Cheng A., Jia R., Zhou Y., Chen Z., Luo Q., Liu F., Wang Y., Chen X.Y.
      J. Bacteriol. 194:3270-3271(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 11845Imported.
    3. "Riemerella anatipestifer ATCC 11845 Complete Genome."
      Cheng A.-C., Wang M.-S., Zhu D.-K., Wang X.-J.
      Submitted (SEP-2012) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: ATCC 11845Imported.

    Entry informationi

    Entry nameiE4TD77_RIEAD
    AccessioniPrimary (citable) accession number: E4TD77
    Entry historyi
    Integrated into UniProtKB/TrEMBL: February 8, 2011
    Last sequence update: February 8, 2011
    Last modified: October 1, 2014
    This is version 28 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