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Protein

Vancomycin/teicoplanin A-type resistance protein VanA

Gene

vanA

Organism
Enterococcus faecium (Streptococcus faecium)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Required for high-level resistance to glycopeptide antibiotics. D-Ala--D-Ala ligase of altered specificity which catalyzes ester bond formation between D-Ala and various D-hydroxy acids; produces a peptidoglycan which does not terminate in D-alanine but in D-lactate, thus preventing vancomycin or teicoplanin binding.1 Publication

Catalytic activityi

D-alanine + (R)-lactate + ATP = D-alanyl-(R)-lactate + ADP + phosphate.1 Publication

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Binds 2 magnesium or manganese ions per subunit.By similarity

Kineticsi

  1. KM=7.1 mM for D-lactate1 Publication
  2. KM=3.8 mM for D-alanine1 Publication
  3. KM=0.6 mM for 2-hydroxybutyrate1 Publication
  4. KM=3.2 mM for 2-hydroxyvalerate1 Publication
  5. KM=11 mM for 2-hydroxycaproate1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Binding sitei133ATP1
    Binding sitei241ATP; via amide nitrogen1
    Binding sitei244Substrate1
    Metal bindingi305Magnesium 11 Publication1
    Metal bindingi305Magnesium 21 Publication1
    Metal bindingi307Magnesium 21 Publication1

    Regions

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Nucleotide bindingi169 – 171ATP3
    Nucleotide bindingi177 – 178ATP2
    Nucleotide bindingi207 – 214ATP8
    Nucleotide bindingi304 – 305ATP2

    GO - Molecular functioni

    • ATP binding Source: UniProtKB-KW
    • D-alanine-D-alanine ligase activity Source: CACAO
    • metal ion binding Source: UniProtKB-KW

    GO - Biological processi

    Keywordsi

    Molecular functionLigase
    Biological processAntibiotic resistance, Cell shape, Cell wall biogenesis/degradation, Peptidoglycan synthesis
    LigandATP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciMetaCyc:MONOMER-15466
    BRENDAi6.1.2.1 2096
    SABIO-RKP25051

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Vancomycin/teicoplanin A-type resistance protein VanA (EC:6.1.2.1)
    Alternative name(s):
    D-alanine--D-lactate ligase
    VanA ligase
    Gene namesi
    Name:vanA
    Encoded oniPlasmid pIP8160 Publication
    OrganismiEnterococcus faecium (Streptococcus faecium)
    Taxonomic identifieri1352 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesEnterococcaceaeEnterococcus

    Subcellular locationi

    GO - Cellular componenti

    Keywords - Cellular componenti

    Cell membrane, Membrane

    Pathology & Biotechi

    Chemistry databases

    ChEMBLiCHEMBL6037

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00001779171 – 343Vancomycin/teicoplanin A-type resistance protein VanAAdd BLAST343

    Proteomic databases

    PRIDEiP25051

    Expressioni

    Inductioni

    By vancomycin, mediated by VanS/VanR.

    Interactioni

    Chemistry databases

    BindingDBiP25051

    Structurei

    Secondary structure

    1343
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi4 – 11Combined sources8
    Helixi17 – 30Combined sources14
    Turni33 – 35Combined sources3
    Beta strandi36 – 43Combined sources8
    Beta strandi49 – 53Combined sources5
    Beta strandi65 – 69Combined sources5
    Turni73 – 75Combined sources3
    Beta strandi77 – 82Combined sources6
    Beta strandi85 – 90Combined sources6
    Beta strandi92 – 96Combined sources5
    Turni101 – 103Combined sources3
    Beta strandi104 – 106Combined sources3
    Helixi107 – 115Combined sources9
    Beta strandi119 – 121Combined sources3
    Helixi124 – 131Combined sources8
    Helixi133 – 142Combined sources10
    Beta strandi150 – 153Combined sources4
    Helixi161 – 163Combined sources3
    Beta strandi168 – 174Combined sources7
    Turni177 – 180Combined sources4
    Beta strandi182 – 184Combined sources3
    Helixi187 – 189Combined sources3
    Helixi190 – 197Combined sources8
    Turni198 – 200Combined sources3
    Beta strandi202 – 208Combined sources7
    Beta strandi212 – 222Combined sources11
    Beta strandi232 – 239Combined sources8
    Helixi243 – 245Combined sources3
    Beta strandi246 – 248Combined sources3
    Helixi249 – 251Combined sources3
    Beta strandi254 – 258Combined sources5
    Helixi266 – 282Combined sources17
    Beta strandi286 – 295Combined sources10
    Beta strandi301 – 309Combined sources9
    Helixi317 – 324Combined sources8
    Helixi329 – 341Combined sources13

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1E4EX-ray2.50A/B1-343[»]
    ProteinModelPortaliP25051
    SMRiP25051
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP25051

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Domaini137 – 338ATP-graspAdd BLAST202

    Sequence similaritiesi

    Belongs to the D-alanine--D-alanine ligase family.Curated

    Phylogenomic databases

    KOiK15739

    Family and domain databases

    Gene3Di3.30.1490.20, 1 hit
    HAMAPiMF_00047 Dala_Dala_lig, 1 hit
    InterProiView protein in InterPro
    IPR011761 ATP-grasp
    IPR013815 ATP_grasp_subdomain_1
    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_sf
    PfamiView protein in Pfam
    PF07478 Dala_Dala_lig_C, 1 hit
    PF01820 Dala_Dala_lig_N, 1 hit
    PIRSFiPIRSF039102 Ddl/VanB, 1 hit
    SUPFAMiSSF52440 SSF52440, 1 hit
    TIGRFAMsiTIGR01205 D_ala_D_alaTIGR, 1 hit
    PROSITEiView protein in PROSITE
    PS50975 ATP_GRASP, 1 hit
    PS00843 DALA_DALA_LIGASE_1, 1 hit
    PS00844 DALA_DALA_LIGASE_2, 1 hit

    Sequencei

    Sequence statusi: Complete.

    P25051-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MNRIKVAILF GGCSEEHDVS VKSAIEIAAN INKEKYEPLY IGITKSGVWK
    60 70 80 90 100
    MCEKPCAEWE NDNCYSAVLS PDKKMHGLLV KKNHEYEINH VDVAFSALHG
    110 120 130 140 150
    KSGEDGSIQG LFELSGIPFV GCDIQSSAIC MDKSLTYIVA KNAGIATPAF
    160 170 180 190 200
    WVINKDDRPV AATFTYPVFV KPARSGSSFG VKKVNSADEL DYAIESARQY
    210 220 230 240 250
    DSKILIEQAV SGCEVGCAVL GNSAALVVGE VDQIRLQYGI FRIHQEVEPE
    260 270 280 290 300
    KGSENAVITV PADLSAEERG RIQETAKKIY KALGCRGLAR VDMFLQDNGR
    310 320 330 340
    IVLNEVNTLP GFTSYSRYPR MMAAAGIALP ELIDRLIVLA LKG
    Length:343
    Mass (Da):37,443
    Last modified:May 1, 1992 - v1
    Checksum:iAAA48E3B2AD48E03
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X56895 Genomic DNA Translation: CAA40215.1
    M97297 Genomic DNA Translation: AAA65956.1
    PIRiS12254 CESOVM
    RefSeqiWP_001079845.1, NZ_PJZU01000110.1
    YP_001019035.1, NC_008821.1
    YP_001974796.1, NC_010980.1
    YP_002128399.1, NC_011140.1
    YP_976077.1, NC_008768.1

    Genome annotation databases

    GeneIDi4670249
    4783144
    6385877
    6779647
    KEGGiag:CAA40215

    Similar proteinsi

    Entry informationi

    Entry nameiVANA_ENTFC
    AccessioniPrimary (citable) accession number: P25051
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 1992
    Last sequence update: May 1, 1992
    Last modified: May 23, 2018
    This is version 130 of the entry and version 1 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Direct protein sequencing, Plasmid

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