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D5AQ01

- D5AQ01_RHOCB

UniProt

D5AQ01 - D5AQ01_RHOCB

Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Rhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 30 (01 Oct 2014)
      Sequence version 1 (15 Jun 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 bindingi252 – 2521Magnesium or manganese 1UniRule annotation
    Metal bindingi268 – 2681Magnesium or manganese 1UniRule annotation
    Metal bindingi268 – 2681Magnesium or manganese 2UniRule annotation
    Metal bindingi270 – 2701Magnesium or manganese 2UniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi135 – 18551ATPUniRule 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

    BioCyciRCAP272942:GJIY-836-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 annotationImported
    Ordered Locus Names:RCAP_rcc00823Imported
    OrganismiRhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003)Imported
    Taxonomic identifieri272942 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRhodobacter
    ProteomesiUP000002361: 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

    ProteinModelPortaliD5AQ01.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini108 – 301194ATP-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.
    OMAiCEQFIDG.

    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.

    D5AQ01-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAGMSSRTVP LVAVLMGGPS AEREVSLSSG RECAKALRAA GYDVAEIDAG    50
    ADLAERLRAL MPDVVFNALH GRWGEDGCVQ GILEWLRLPY THSGVLASAL 100
    AMDKTRAKAA YKAAGLPVVE SRLASKAEVM AAHVLPAPYV VKPNNEGSSV 150
    GVYLVLDGAN RPPQLSDEMP EVVMVETYAP GRELTCTVMG DRALCVTEIV 200
    TTGWYDYAAK YTAGGSRHVC PAELPAGIAE TIRDYALRAH RALGCRGVSR 250
    TDFRWDESRG TAGLILLETN TQPGMTPTSL APEQAAAEGM SFADLCRWMV 300
    EDASCDR 307
    Length:307
    Mass (Da):32,762
    Last modified:June 15, 2010 - v1
    Checksum:iDCC35F6A80438C10
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001312 Genomic DNA. Translation: ADE84588.1.
    RefSeqiYP_003576995.1. NC_014034.1.

    Genome annotation databases

    EnsemblBacteriaiADE84588; ADE84588; RCAP_rcc00823.
    GeneIDi9003652.
    KEGGircp:RCAP_rcc00823.
    PATRICi35501730. VBIRhoCap134200_0842.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001312 Genomic DNA. Translation: ADE84588.1 .
    RefSeqi YP_003576995.1. NC_014034.1.

    3D structure databases

    ProteinModelPortali D5AQ01.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ADE84588 ; ADE84588 ; RCAP_rcc00823 .
    GeneIDi 9003652.
    KEGGi rcp:RCAP_rcc00823.
    PATRICi 35501730. VBIRhoCap134200_0842.

    Phylogenomic databases

    HOGENOMi HOG000011592.
    KOi K01921.
    OMAi CEQFIDG.

    Enzyme and pathway databases

    UniPathwayi UPA00219 .
    BioCyci RCAP272942:GJIY-836-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 genome sequence of Rhodobacter capsulatus SB1003."
      Strnad H., Lapidus A., Vlcek C., Ulbrich P., Paces J., Maltsev N., Kumar V., Kogan Y., Milgram A., Rebrekov D., Mazur M., Cox R., Kyrpides N., Kolar M., Sachova J., Ridl J., Ivanova N., Kapatral V.
      , Los T., Lykidis A., Mikhailova N., Reznik G., Vasieva O., Fonstein M., Paces V., Haselkorn R.
      Submitted (DEC-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: SB1003.
    2. "Complete genome sequence of the photosynthetic purple nonsulfur bacterium Rhodobacter capsulatus SB 1003."
      Strnad H., Lapidus A., Paces J., Ulbrich P., Vlcek C., Paces V., Haselkorn R.
      J. Bacteriol. 192:3545-3546(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC BAA-309 / NBRC 16581 / SB1003Imported.

    Entry informationi

    Entry nameiD5AQ01_RHOCB
    AccessioniPrimary (citable) accession number: D5AQ01
    Entry historyi
    Integrated into UniProtKB/TrEMBL: June 15, 2010
    Last sequence update: June 15, 2010
    Last modified: October 1, 2014
    This is version 30 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