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P75820

- AMID_ECOLI

UniProt

P75820 - AMID_ECOLI

Protein

N-acetylmuramoyl-L-alanine amidase AmiD

Gene

amiD

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 115 (01 Oct 2014)
      Sequence version 1 (01 Feb 1997)
      Previous versions | rss
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    Functioni

    Catalytic activityi

    Hydrolyzes the link between N-acetylmuramoyl residues and L-amino acid residues in certain cell-wall glycopeptides.

    Cofactori

    Binds 1 zinc ion per subunit.1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi50 – 501Zinc; catalytic1 Publication
    Active sitei119 – 1191Proton acceptor1 Publication
    Metal bindingi166 – 1661Zinc; catalytic1 Publication
    Sitei174 – 1741Transition state stabilizer
    Metal bindingi176 – 1761Zinc; catalytic1 Publication

    GO - Molecular functioni

    1. N-acetyl-anhydromuramoyl-L-alanine amidase activity Source: EcoCyc
    2. N-acetylmuramoyl-L-alanine amidase activity Source: EcoCyc
    3. zinc ion binding Source: EcoliWiki

    GO - Biological processi

    1. peptidoglycan catabolic process Source: EcoCyc

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Biological processi

    Cell wall biogenesis/degradation

    Keywords - Ligandi

    Metal-binding, Zinc

    Enzyme and pathway databases

    BioCyciEcoCyc:G6452-MONOMER.
    ECOL316407:JW0851-MONOMER.
    MetaCyc:G6452-MONOMER.
    RETL1328306-WGS:GSTH-2906-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    N-acetylmuramoyl-L-alanine amidase AmiD (EC:3.5.1.28)
    Gene namesi
    Name:amiD
    Synonyms:ybjR
    Ordered Locus Names:b0867, JW0851
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
    ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

    Organism-specific databases

    EcoGeneiEG13687. amiD.

    Subcellular locationi

    GO - Cellular componenti

    1. cell outer membrane Source: UniProtKB-SubCell
    2. outer membrane Source: EcoliWiki

    Keywords - Cellular componenti

    Cell outer membrane, Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 1616PROSITE-ProRule annotationAdd
    BLAST
    Chaini17 – 276260N-acetylmuramoyl-L-alanine amidase AmiDPRO_0000164417Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Lipidationi17 – 171N-palmitoyl cysteinePROSITE-ProRule annotation
    Lipidationi17 – 171S-diacylglycerol cysteinePROSITE-ProRule annotation

    Keywords - PTMi

    Lipoprotein, Palmitate

    Proteomic databases

    PRIDEiP75820.

    Expressioni

    Gene expression databases

    GenevestigatoriP75820.

    Interactioni

    Protein-protein interaction databases

    STRINGi511145.b0867.

    Structurei

    Secondary structure

    1
    276
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi23 – 253
    Beta strandi30 – 323
    Beta strandi46 – 516
    Helixi56 – 638
    Beta strandi65 – 673
    Beta strandi71 – 744
    Helixi111 – 1144
    Beta strandi115 – 1206
    Beta strandi125 – 1284
    Beta strandi131 – 1344
    Helixi139 – 15618
    Helixi160 – 1623
    Beta strandi163 – 1653
    Helixi166 – 1694
    Turni171 – 1733
    Helixi183 – 1886
    Helixi197 – 2048
    Helixi215 – 22511
    Helixi235 – 24915
    Helixi260 – 27314

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2BH7X-ray2.20A18-276[»]
    2WKXX-ray1.80A18-276[»]
    3D2YX-ray1.75A18-276[»]
    3D2ZX-ray2.80A18-276[»]
    ProteinModelPortaliP75820.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP75820.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni51 – 522Substrate binding

    Sequence similaritiesi

    Keywords - Domaini

    Signal

    Phylogenomic databases

    eggNOGiCOG3023.
    HOGENOMiHOG000255964.
    KOiK11066.
    OMAiIGAWPDE.
    OrthoDBiEOG60GRR5.
    PhylomeDBiP75820.

    Family and domain databases

    Gene3Di3.40.80.10. 1 hit.
    InterProiIPR002502. Amidase_domain.
    IPR002477. Peptidoglycan-bd-like.
    [Graphical view]
    PfamiPF01510. Amidase_2. 1 hit.
    [Graphical view]
    SMARTiSM00644. Ami_2. 1 hit.
    [Graphical view]
    SUPFAMiSSF47090. SSF47090. 1 hit.
    SSF55846. SSF55846. 1 hit.
    PROSITEiPS51257. PROKAR_LIPOPROTEIN. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P75820-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRRFFWLVAA ALLLAGCAGE KGIVEKEGYQ LDTRRQAQAA YPRIKVLVIH    50
    YTADDFDSSL ATLTDKQVSS HYLVPAVPPR YNGKPRIWQL VPEQELAWHA 100
    GISAWRGATR LNDTSIGIEL ENRGWQKSAG VKYFAPFEPA QIQALIPLAK 150
    DIIARYHIKP ENVVAHADIA PQRKDDPGPL FPWQQLAQQG IGAWPDAQRV 200
    NFYLAGRAPH TPVDTASLLE LLARYGYDVK PDMTPREQRR VIMAFQMHFR 250
    PTLYNGEADA ETQAIAEALL EKYGQD 276
    Length:276
    Mass (Da):31,072
    Last modified:February 1, 1997 - v1
    Checksum:iE6E4F642AFF548CD
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U00096 Genomic DNA. Translation: AAC73954.1.
    AP009048 Genomic DNA. Translation: BAA35581.1.
    PIRiC64825.
    RefSeqiNP_415388.1. NC_000913.3.
    YP_489140.1. NC_007779.1.

    Genome annotation databases

    EnsemblBacteriaiAAC73954; AAC73954; b0867.
    BAA35581; BAA35581; BAA35581.
    GeneIDi12931004.
    945494.
    KEGGiecj:Y75_p0840.
    eco:b0867.
    PATRICi32116941. VBIEscCol129921_0896.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U00096 Genomic DNA. Translation: AAC73954.1 .
    AP009048 Genomic DNA. Translation: BAA35581.1 .
    PIRi C64825.
    RefSeqi NP_415388.1. NC_000913.3.
    YP_489140.1. NC_007779.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2BH7 X-ray 2.20 A 18-276 [» ]
    2WKX X-ray 1.80 A 18-276 [» ]
    3D2Y X-ray 1.75 A 18-276 [» ]
    3D2Z X-ray 2.80 A 18-276 [» ]
    ProteinModelPortali P75820.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 511145.b0867.

    Proteomic databases

    PRIDEi P75820.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAC73954 ; AAC73954 ; b0867 .
    BAA35581 ; BAA35581 ; BAA35581 .
    GeneIDi 12931004.
    945494.
    KEGGi ecj:Y75_p0840.
    eco:b0867.
    PATRICi 32116941. VBIEscCol129921_0896.

    Organism-specific databases

    EchoBASEi EB3451.
    EcoGenei EG13687. amiD.

    Phylogenomic databases

    eggNOGi COG3023.
    HOGENOMi HOG000255964.
    KOi K11066.
    OMAi IGAWPDE.
    OrthoDBi EOG60GRR5.
    PhylomeDBi P75820.

    Enzyme and pathway databases

    BioCyci EcoCyc:G6452-MONOMER.
    ECOL316407:JW0851-MONOMER.
    MetaCyc:G6452-MONOMER.
    RETL1328306-WGS:GSTH-2906-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P75820.
    PROi P75820.

    Gene expression databases

    Genevestigatori P75820.

    Family and domain databases

    Gene3Di 3.40.80.10. 1 hit.
    InterProi IPR002502. Amidase_domain.
    IPR002477. Peptidoglycan-bd-like.
    [Graphical view ]
    Pfami PF01510. Amidase_2. 1 hit.
    [Graphical view ]
    SMARTi SM00644. Ami_2. 1 hit.
    [Graphical view ]
    SUPFAMi SSF47090. SSF47090. 1 hit.
    SSF55846. SSF55846. 1 hit.
    PROSITEi PS51257. PROKAR_LIPOPROTEIN. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / MG1655 / ATCC 47076.
    3. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
      Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
      Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
    4. "Specific structural features of the N-acetylmuramoyl-L-alanine amidase AmiD from Escherichia coli and mechanistic implications for enzymes of this family."
      Kerff F., Petrella S., Mercier F., Sauvage E., Herman R., Pennartz A., Zervosen A., Luxen A., Frere J.M., Joris B., Charlier P.
      J. Mol. Biol. 397:249-259(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.75 ANGSTROMS) OF 18-276 IN COMPLEX WITH ZINC AND N-ACETYLMURAMOYL-TRIPEPTIDE, COFACTOR, ACTIVE SITE.

    Entry informationi

    Entry nameiAMID_ECOLI
    AccessioniPrimary (citable) accession number: P75820
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 1, 2000
    Last sequence update: February 1, 1997
    Last modified: October 1, 2014
    This is version 115 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

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Escherichia coli
      Escherichia coli (strain K12): entries and cross-references to EcoGene
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3