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Q82VS0

- DDL_NITEU

UniProt

Q82VS0 - DDL_NITEU

Protein

D-alanine--D-alanine ligase

Gene

ddl

Organism
Nitrosomonas europaea (strain ATCC 19718 / NBRC 14298)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 79 (01 Oct 2014)
      Sequence version 1 (01 Jun 2003)
      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 bindingi254 – 2541Magnesium or manganese 1UniRule annotation
    Metal bindingi267 – 2671Magnesium or manganese 1UniRule annotation
    Metal bindingi267 – 2671Magnesium or manganese 2UniRule annotation
    Metal bindingi269 – 2691Magnesium or manganese 2UniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi131 – 18656ATPUniRule 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

    BioCyciNEUR228410:GJNO-1017-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
    Synonyms:ddlB
    Ordered Locus Names:NE0994
    OrganismiNitrosomonas europaea (strain ATCC 19718 / NBRC 14298)
    Taxonomic identifieri228410 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNitrosomonadalesNitrosomonadaceaeNitrosomonas
    ProteomesiUP000001416: 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 – 305305D-alanine--D-alanine ligasePRO_0000177847Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi228410.NE0994.

    Structurei

    3D structure databases

    ProteinModelPortaliQ82VS0.
    SMRiQ82VS0. Positions 7-302.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini105 – 300196ATP-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.
    HOGENOMiHOG000011592.
    KOiK01921.
    OMAiCSGYSRV.
    OrthoDBiEOG6ND0KB.
    PhylomeDBiQ82VS0.

    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.

    Q82VS0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNTRDVGKVA VLLGGRSAER EISLRSGQAV LAALQRSRVN AHAFDPAGQP    50
    LENLLQQGFD RVFIALHGRY GEDGSVQGAL ELMELPYTGS GILASALAMD 100
    KWRTKMIWQA AGINTPDYVM LDASSRFRDV ADRLGLPLII KPAREGSTLG 150
    LNKVDNEQDF RSAYQAAAEY DSLVLAEQFI QGIELTAAIL DDMPLPLVRI 200
    DVAEGLYDYQ AKYFSESTRY TCPSGLSAAL TTRIQEQALY AHRILGCTGW 250
    SRVDLILDEN EQPFFLETNT SPGMTDHSLV PMAAKAAGIS FDELVVQILE 300
    LSCEH 305
    Length:305
    Mass (Da):33,442
    Last modified:June 1, 2003 - v1
    Checksum:i54B1F11950432305
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL954747 Genomic DNA. Translation: CAD84905.1.
    RefSeqiNP_841067.1. NC_004757.1.
    WP_011111603.1. NC_004757.1.

    Genome annotation databases

    EnsemblBacteriaiCAD84905; CAD84905; NE0994.
    GeneIDi1081936.
    KEGGineu:NE0994.
    PATRICi22713008. VBINitEur56163_1105.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL954747 Genomic DNA. Translation: CAD84905.1 .
    RefSeqi NP_841067.1. NC_004757.1.
    WP_011111603.1. NC_004757.1.

    3D structure databases

    ProteinModelPortali Q82VS0.
    SMRi Q82VS0. Positions 7-302.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 228410.NE0994.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai CAD84905 ; CAD84905 ; NE0994 .
    GeneIDi 1081936.
    KEGGi neu:NE0994.
    PATRICi 22713008. VBINitEur56163_1105.

    Phylogenomic databases

    eggNOGi COG1181.
    HOGENOMi HOG000011592.
    KOi K01921.
    OMAi CSGYSRV.
    OrthoDBi EOG6ND0KB.
    PhylomeDBi Q82VS0.

    Enzyme and pathway databases

    UniPathwayi UPA00219 .
    BioCyci NEUR228410:GJNO-1017-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 the ammonia-oxidizing bacterium and obligate chemolithoautotroph Nitrosomonas europaea."
      Chain P., Lamerdin J.E., Larimer F.W., Regala W., Lao V., Land M.L., Hauser L., Hooper A.B., Klotz M.G., Norton J., Sayavedra-Soto L.A., Arciero D.M., Hommes N.G., Whittaker M.M., Arp D.J.
      J. Bacteriol. 185:2759-2773(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 19718 / NBRC 14298.

    Entry informationi

    Entry nameiDDL_NITEU
    AccessioniPrimary (citable) accession number: Q82VS0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 2003
    Last sequence update: June 1, 2003
    Last modified: October 1, 2014
    This is version 79 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, Reference proteome

    Documents

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

    External Data

    Dasty 3