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I1YGJ2

- I1YGJ2_METFJ

UniProt

I1YGJ2 - I1YGJ2_METFJ

Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Methylophaga frappieri (strain ATCC BAA-2434 / DSM 25690 / JAM7)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 17 (01 Oct 2014)
      Sequence version 1 (11 Jul 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 bindingi259 – 2591Magnesium or manganese 1UniRule annotation
    Metal bindingi272 – 2721Magnesium or manganese 1UniRule annotation
    Metal bindingi272 – 2721Magnesium or manganese 2UniRule annotation
    Metal bindingi274 – 2741Magnesium or manganese 2UniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi136 – 19156ATPUniRule 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

    BioCyciMSP754477:GLGI-863-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:Q7C_866Imported
    OrganismiMethylophaga frappieri (strain ATCC BAA-2434 / DSM 25690 / JAM7)Imported
    Taxonomic identifieri754477 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaThiotrichalesPiscirickettsiaceaeMethylophaga
    ProteomesiUP000009145: 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
    Domaini110 – 305196ATP-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.
    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.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    I1YGJ2-1 [UniParc]FASTAAdd to Basket

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    MMDQITDPKA FGRVAVLMGG RSAEREISLK SGNAVLSALL AKGVEAVGID    50
    VDSHIDITLR EGQFDRAFIV LHGRGGEDGE IQGLLQAMAI PFTGSGVTGA 100
    MLSMNKRISK LIWQQQALST PKFRLVNAET DPQELVIALG LPLVIKPVHE 150
    GSSIGMSKVT DGEAIAAAIR LALQFDQDVI AEQWINGAEY TASILAGNAL 200
    PVIRLKTPRE FYDFEAKYHA NNTEYLCPCG LTEEQEKRCQ ALALDAFNAL 250
    QMKGWGRVDV MADQQGNFYL LEANGVPGMT DHSLVPMAAR ETGLDFQQLC 300
    WRILETSLEE KN 312
    Length:312
    Mass (Da):34,034
    Last modified:July 11, 2012 - v1
    Checksum:i8EF104D6912C490A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP003380 Genomic DNA. Translation: AFJ02035.1.
    RefSeqiWP_014703456.1. NC_017856.1.
    YP_006292722.1. NC_017856.1.

    Genome annotation databases

    EnsemblBacteriaiAFJ02035; AFJ02035; Q7C_866.
    GeneIDi12843204.
    KEGGimec:Q7C_866.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP003380 Genomic DNA. Translation: AFJ02035.1 .
    RefSeqi WP_014703456.1. NC_017856.1.
    YP_006292722.1. NC_017856.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AFJ02035 ; AFJ02035 ; Q7C_866 .
    GeneIDi 12843204.
    KEGGi mec:Q7C_866.

    Phylogenomic databases

    KOi K01921.

    Enzyme and pathway databases

    UniPathwayi UPA00219 .
    BioCyci MSP754477:GLGI-863-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.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequences of Methylophaga sp. strain JAM1 and Methylophaga sp. strain JAM7."
      Villeneuve C., Martineau C., Mauffrey F., Villemur R.
      J. Bacteriol. 194:4126-4127(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: JAM7Imported.

    Entry informationi

    Entry nameiI1YGJ2_METFJ
    AccessioniPrimary (citable) accession number: I1YGJ2
    Entry historyi
    Integrated into UniProtKB/TrEMBL: July 11, 2012
    Last sequence update: July 11, 2012
    Last modified: October 1, 2014
    This is version 17 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteomeImported

    External Data

    Dasty 3