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(-) Description

Title :  CRYSTAL STRUCTURE OF VAT(D) (FORM I)
 
Authors :  M. Sugantino, S. L. Roderick
Date :  06 Dec 01  (Deposition) - 20 Feb 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Antibiotic Resistance, Acyltransferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Sugantino, S. L. Roderick
Crystal Structure Of Vat(D): An Acetyltransferase That Inactivates Streptogramin Group A Antibiotics.
Biochemistry V. 41 2209 2002
PubMed-ID: 11841212  |  Reference-DOI: 10.1021/BI011991B
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - STREPTOGRAMIN A ACETYLTRANSFERASE
    Chains: A, B, C
    EC Number: 2.3.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SATA
    Organism Scientific: ENTEROCOCCUS FAECIUM
    Organism Taxid: 1352

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1KK6)

(-) Sites  (0, 0)

(no "Site" information available for 1KK6)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1KK6)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Asn A:159 -Pro A:160
2Asn B:159 -Pro B:160
3Asn C:159 -Pro C:160

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KK6)

(-) PROSITE Motifs  (1, 3)

Asymmetric/Biological Unit (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HEXAPEP_TRANSFERASESPS00101 Hexapeptide-repeat containing-transferases signature.VATD_ENTFC122-150
 
 		  3A:122-150
B:122-150
C:122-150

(-) Exons   (0, 0)

(no "Exon" information available for 1KK6)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:207
 aligned with VATD_ENTFC | P50870 from UniProtKB/Swiss-Prot  Length:209

    Alignment length:207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       
           VATD_ENTFC     1 MGPNPMKMYPIEGNKSVQFIKPILEKLENVEVGEYSYYDSKNGETFDKQILYHYPILNDKLKIGKFCSIGPGVTIIMNGANHRMDGSTYPFNLFGNGWEKHMPKLDQLPIKGDTIIGNDVWIGKDVVIMPGVKIGDGAIVAANSVVVKDIAPYMLAGGNPANEIKQRFDQDTINQLLDIKWWNWPIDIINENIDKILDNSIIREVIW 207
               SCOP domains d1kk6a_ A: Xenobiotic acetyltransferase                                                                                                                                                                         SCOP domains
               CATH domains 1kk6A00 A:1-207 Hexapeptide repeat proteins                                                                                                                                                                     CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeehhhhhh....eee....eee.....hhhh.ee..hhhhh..eee....ee....eee.hhhh........hhhhhh.hhhhhh.hhhhh.....eee....ee....ee....ee....ee....ee.......eeee....eeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------HEXAPEP_TRANSFERASES         --------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1kk6 A   1 MGPNPMKMYPIEGNKSVQFIKPILEKLENVEVGEYSYYDSKNGETFDKQILYHYPILNDKLKIGKFCSIGPGVTIIMNGANHRMDGSTYPFNLFGNGWEKHMPKLDQLPIKGDTIIGNDVWIGKDVVIMPGVKIGDGAIVAANSVVVKDIAPYMLAGGNPANEIKQRFDQDTINQLLDIKWWNWPIDIINENIDKILDNSIIREVIW 207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       


Chain B from PDB  Type:PROTEIN  Length:207
 aligned with VATD_ENTFC | P50870 from UniProtKB/Swiss-Prot  Length:209

    Alignment length:207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       
           VATD_ENTFC     1 MGPNPMKMYPIEGNKSVQFIKPILEKLENVEVGEYSYYDSKNGETFDKQILYHYPILNDKLKIGKFCSIGPGVTIIMNGANHRMDGSTYPFNLFGNGWEKHMPKLDQLPIKGDTIIGNDVWIGKDVVIMPGVKIGDGAIVAANSVVVKDIAPYMLAGGNPANEIKQRFDQDTINQLLDIKWWNWPIDIINENIDKILDNSIIREVIW 207
               SCOP domains d1kk6b_ B: Xenobiotic acetyltransferase                                                                                                                                                                         SCOP domains
               CATH domains 1kk6B00 B:1-207 Hexapeptide repeat proteins                                                                                                                                                                     CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeehhhhh.....eee....eee.....hhhh.ee..hhhhh..eee....ee....eee.hhhh........hhhhhh.hhhhhh.hhhhh.....eee....ee....ee....ee....ee....ee.......eeee....eeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------HEXAPEP_TRANSFERASES         --------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1kk6 B   1 MGPNPMKMYPIEGNKSVQFIKPILEKLENVEVGEYSYYDSKNGETFDKQILYHYPILNDKLKIGKFCSIGPGVTIIMNGANHRMDGSTYPFNLFGNGWEKHMPKLDQLPIKGDTIIGNDVWIGKDVVIMPGVKIGDGAIVAANSVVVKDIAPYMLAGGNPANEIKQRFDQDTINQLLDIKWWNWPIDIINENIDKILDNSIIREVIW 207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       


Chain C from PDB  Type:PROTEIN  Length:205
 aligned with VATD_ENTFC | P50870 from UniProtKB/Swiss-Prot  Length:209

    Alignment length:205
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200     
           VATD_ENTFC     1 MGPNPMKMYPIEGNKSVQFIKPILEKLENVEVGEYSYYDSKNGETFDKQILYHYPILNDKLKIGKFCSIGPGVTIIMNGANHRMDGSTYPFNLFGNGWEKHMPKLDQLPIKGDTIIGNDVWIGKDVVIMPGVKIGDGAIVAANSVVVKDIAPYMLAGGNPANEIKQRFDQDTINQLLDIKWWNWPIDIINENIDKILDNSIIREV 205
               SCOP domains d1kk6c_ C: Xenobiotic acetyltransferase                                                                                                                                                                       SCOP domains
               CATH domains 1kk6C00 C:1-205 Hexapeptide repeat proteins                                                                                                                                                                   CATH domains
           Pfam domains (1) ----------------------------------------------------------------------------------------------------------------Hexapep-1kk6C01 C:113-148           --------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------------------------------------------------Hexapep-1kk6C02 C:113-148           --------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) ----------------------------------------------------------------------------------------------------------------Hexapep-1kk6C03 C:113-148           --------------------------------------------------------- Pfam domains (3)
         Sec.struct. author ................eeehhhhhh....eee....eee.....hhhh.ee..hhhhh..eee....ee....eee.hhhh........hhhhhh........hhhhh.....eee....ee....ee....ee....ee....ee.......eeee....eeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------HEXAPEP_TRANSFERASES         ------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1kk6 C   1 MGPNPMKMYPIEGNKSVQFIKPILEKLENVEVGEYSYYDSKNGETFDKQILYHYPILNDKLKIGKFCSIGPGVTIIMNGANHRMDGSTYPFNLFGNGWEKHMPKLDQLPIKGDTIIGNDVWIGKDVVIMPGVKIGDGAIVAANSVVVKDIAPYMLAGGNPANEIKQRFDQDTINQLLDIKWWNWPIDIINENIDKILDNSIIREV 205
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Hexapep] (52)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (VATD_ENTFC | P50870)
molecular function
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
    GO:0046677    response to antibiotic    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.

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  Cis Peptide Bonds
    Asn A:159 - Pro A:160   [ RasMol ]  
    Asn B:159 - Pro B:160   [ RasMol ]  
    Asn C:159 - Pro C:160   [ RasMol ]  
 

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  1kk6
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  2.3.1.-
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        VATD_ENTFC | P50870: 1khr 1kk4 1kk5 1mr7 1mr9 1mrl 3dho

(-) Related Entries Specified in the PDB File

1kk4 CRYSTAL STRUCTURE OF VAT(D) IN COMPLEX WITH ACETYL-COA
1kk5 CRYSTAL STRUCTURE OF VAT(D) (FORM II)