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B7GU04

- DDL_BIFLS

UniProt

B7GU04 - DDL_BIFLS

Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Bifidobacterium longum subsp. infantis (strain ATCC 15697 / DSM 20088 / JCM 1222 / NCTC 11817 / S12)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 43 (01 Oct 2014)
      Sequence version 1 (10 Feb 2009)
      Previous versions | rss
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    Functioni

    Cell wall formation.UniRule annotation

    Catalytic activityi

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

    Cofactori

    Binds 2 magnesium or manganese ions per subunit.By similarity

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi345 – 3451Magnesium or manganese 1UniRule annotation
    Metal bindingi358 – 3581Magnesium or manganese 1UniRule annotation
    Metal bindingi358 – 3581Magnesium or manganese 2UniRule annotation
    Metal bindingi360 – 3601Magnesium or manganese 2UniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi204 – 26663ATPUniRule 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

    Ligase

    Keywords - Biological processi

    Cell shape, Cell wall biogenesis/degradation, Peptidoglycan synthesis

    Keywords - Ligandi

    ATP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciBLON391904:GCDR-332-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:Blon_0320, BLIJ_0326
    OrganismiBifidobacterium longum subsp. infantis (strain ATCC 15697 / DSM 20088 / JCM 1222 / NCTC 11817 / S12)
    Taxonomic identifieri391904 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeBifidobacterialesBifidobacteriaceaeBifidobacterium
    ProteomesiUP000001360: Chromosome, UP000007256: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 395395D-alanine--D-alanine ligasePRO_1000202195Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi391904.Blon_0320.

    Structurei

    3D structure databases

    ProteinModelPortaliB7GU04.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini172 – 391220ATP-graspUniRule annotationAdd
    BLAST

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG1181.
    HOGENOMiHOG000011593.
    KOiK01921.
    OMAiQIDVIFP.
    OrthoDBiEOG64BQ73.

    Family and domain databases

    Gene3Di3.30.1490.20. 1 hit.
    3.30.470.20. 1 hit.
    3.40.50.20. 2 hits.
    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. 2 hits.
    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.

    B7GU04-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAKKRVVVLY GGRADEHSIS CISTAGVLGA MDTERFEPIP VGITKDGKWI    50
    INGEDPRGWN LDGGELPTVK ITPESRPVML DPSRGQDGFF IGEPSHINSA 100
    DSGFGTSFVS MPDPEMHHAL TSLGHVDAVL PVLHGPYGED GTVQGLLEMM 150
    GVPYVGCGVF ASAACMDKHY TKVVLGAAGI PTAPGVTVDA RNFTAADVLA 200
    KIEDAGLTYP LFIKPSRAGS SFGVTKVEKA DDRETQQDRL AAAIATAGEH 250
    DWKVLVEQGI DGREIECAVL CPKAGDEPEA SWPGEIVLDH QNDDQFYDFD 300
    SKYMDASASH VEVPANLPVS VLEDVRDVAR RAFKAVDGAG LSRVDTFVTP 350
    DGTVMVNEIN TMPGFTPISM YPKAWDATGV SYTELITRLI EGVLR 395
    Length:395
    Mass (Da):42,306
    Last modified:February 10, 2009 - v1
    Checksum:i36A9B3112A9473AB
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001095 Genomic DNA. Translation: ACJ51445.1.
    AP010889 Genomic DNA. Translation: BAJ67920.1.
    RefSeqiWP_012576753.1. NC_017219.1.
    YP_002321823.1. NC_011593.1.
    YP_005584090.1. NC_017219.1.

    Genome annotation databases

    EnsemblBacteriaiACJ51445; ACJ51445; Blon_0320.
    BAJ67920; BAJ67920; BLIJ_0326.
    GeneIDi12167234.
    7055187.
    KEGGibln:Blon_0320.
    blon:BLIJ_0326.
    PATRICi21121564. VBIBifLon71229_0319.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001095 Genomic DNA. Translation: ACJ51445.1 .
    AP010889 Genomic DNA. Translation: BAJ67920.1 .
    RefSeqi WP_012576753.1. NC_017219.1.
    YP_002321823.1. NC_011593.1.
    YP_005584090.1. NC_017219.1.

    3D structure databases

    ProteinModelPortali B7GU04.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 391904.Blon_0320.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACJ51445 ; ACJ51445 ; Blon_0320 .
    BAJ67920 ; BAJ67920 ; BLIJ_0326 .
    GeneIDi 12167234.
    7055187.
    KEGGi bln:Blon_0320.
    blon:BLIJ_0326.
    PATRICi 21121564. VBIBifLon71229_0319.

    Phylogenomic databases

    eggNOGi COG1181.
    HOGENOMi HOG000011593.
    KOi K01921.
    OMAi QIDVIFP.
    OrthoDBi EOG64BQ73.

    Enzyme and pathway databases

    UniPathwayi UPA00219 .
    BioCyci BLON391904:GCDR-332-MONOMER.

    Family and domain databases

    Gene3Di 3.30.1490.20. 1 hit.
    3.30.470.20. 1 hit.
    3.40.50.20. 2 hits.
    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. 2 hits.
    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. "The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome."
      Sela D.A., Chapman J., Adeuya A., Kim J.H., Chen F., Whitehead T.R., Lapidus A., Rokhsar D.S., Lebrilla C.B., German J.B., Price N.P., Richardson P.M., Mills D.A.
      Proc. Natl. Acad. Sci. U.S.A. 105:18964-18969(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 15697 / DSM 20088 / JCM 1222 / NCTC 11817 / S12.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 15697 / DSM 20088 / JCM 1222 / NCTC 11817 / S12.

    Entry informationi

    Entry nameiDDL_BIFLS
    AccessioniPrimary (citable) accession number: B7GU04
    Secondary accession number(s): E8MP96
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 22, 2009
    Last sequence update: February 10, 2009
    Last modified: October 1, 2014
    This is version 43 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3