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(-) Description

Title :  CRYSTAL STRUCTURE OF STREPTOGRAMIN GROUP A ANTIBIOTIC ACETYLTRANSFERASE VATA FROM STAPHYLOCOCCUS AUREUS
 
Authors :  P. J. Stogios, G. Minasov, A. Dong, E. Evdokimova, V. Yim, M. Krishnamoo Leo, P. Courvalin, A. Savchenko, W. F. Anderson, Center For Structu Genomics Of Infectious Diseases (Csgid)
Date :  27 Sep 13  (Deposition) - 16 Oct 13  (Release) - 24 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  A,B,C  (2x)
Keywords :  Structural Genomics, Antibiotic Resistance, Center For Structural Genomics Of Infectious Diseases, Csgid, Niaid, National Institute Of Allergy And Infectious Diseases, Left-Handed Beta Helix Domain, Xenobiotic Acyltransferase (Xat) Family, Hexapeptide Repeat Acyltransferase, Transferase, Streptogramin Group A Antibiotics, Streptogramin A, Virginiamycin, Dalfopristin, Acetyl Coenzyme A, Coenzyme A, Intracellular (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. J. Stogios, M. L. Kuhn, E. Evdokimova, P. Courvalin, W. F. Anderson, A. Savchenko
Potential For Reduction Of Streptogramin A Resistance Revealed By Structural Analysis Of Acetyltransferase Vata.
Antimicrob. Agents Chemother. V. 58 7083 2014
PubMed-ID: 25223995  |  Reference-DOI: 10.1128/AAC.03743-14

(-) Compounds

Molecule 1 - VIRGINIAMYCIN A ACETYLTRANSFERASE
    Chains: A, B, C
    EC Number: 2.3.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: P15TV LIC
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: VAT
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280
    Strain: BM3093

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): ABC
Biological Unit 2 (2x): ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 15)

Asymmetric Unit (3, 15)
No.NameCountTypeFull Name
1CL11Ligand/IonCHLORIDE ION
2MG1Ligand/IonMAGNESIUM ION
3SO43Ligand/IonSULFATE ION
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MG-1Ligand/IonMAGNESIUM ION
3SO43Ligand/IonSULFATE ION
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MG-1Ligand/IonMAGNESIUM ION
3SO46Ligand/IonSULFATE ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:164 , HOH A:432 , ASN B:164 , HOH B:429 , HOH B:430 , ASN C:164BINDING SITE FOR RESIDUE MG A 301
02AC2SOFTWARELYS A:153 , PHE A:168BINDING SITE FOR RESIDUE CL A 302
03AC3SOFTWAREASN A:203BINDING SITE FOR RESIDUE CL A 303
04AC4SOFTWAREGLU A:60BINDING SITE FOR RESIDUE CL A 304
05AC5SOFTWAREASP A:118 , LYS A:138BINDING SITE FOR RESIDUE CL A 305
06AC6SOFTWAREPHE B:168BINDING SITE FOR RESIDUE CL B 302
07AC7SOFTWAREARG B:88BINDING SITE FOR RESIDUE CL B 304
08AC8SOFTWARELYS B:27 , GLY B:38 , GLU B:39 , ARG B:70BINDING SITE FOR RESIDUE SO4 B 305
09AC9SOFTWAREARG C:100BINDING SITE FOR RESIDUE CL C 301
10BC1SOFTWARELYS C:27 , GLY C:38 , GLU C:39 , ARG C:70BINDING SITE FOR RESIDUE SO4 C 304
11BC2SOFTWARELYS C:153 , PHE C:168BINDING SITE FOR RESIDUE SO4 C 305

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MYO)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Asn A:164 -Pro A:165
2Asn B:164 -Pro B:165
3Asn C:164 -Pro C:165

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4MYO)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4MYO)

(-) Exons   (0, 0)

(no "Exon" information available for 4MYO)

(-) Sequences/Alignments

Asymmetric 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:211
                                                                                                                                                                                                                                                   
               SCOP domains d4myoa_ A: automated matches                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................eee.hhhh....eee....eee.....hhhh.ee.........eee....ee....eee.hhhh........hhhhhh..hhhhh...........eee....ee....ee....ee....ee....ee.......eeee....eeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4myo A   6 GHGPDPENILPIKGNRNLQFIKPTITNENILVGEYSYYDSKRGESFEDQVLYHYEVIGDKLIIGRFCSIGPGTTFIMNGANHRMDGSTYPFHLFRMGWEKYMPSLKDLPLKGDIEIGNDVWIGRDVTIMPGVKIGDGAIIAAEAVVTKNVAPYSIVGGNPLKFIRKRFSDGVIEEWLALQWWNLDMKIINENLPFIINGDIEMLKRKRKLL 216
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215 


Chain B from PDB  Type:PROTEIN  Length:212
                                                                                                                                                                                                                                                    
               SCOP domains d4myob_ B: automated matches                                                                                                                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................eee.hhhh....eee....eee.....hhhh.ee.........eee....ee....eee.............hhhhhh.hhhhhh...........eee....ee....ee....ee....ee....ee.......eeee....eeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4myo B   6 GHGPDPENILPIKGNRNLQFIKPTITNENILVGEYSYYDSKRGESFEDQVLYHYEVIGDKLIIGRFCSIGPGTTFIMNGANHRMDGSTYPFHLFRMGWEKYMPSLKDLPLKGDIEIGNDVWIGRDVTIMPGVKIGDGAIIAAEAVVTKNVAPYSIVGGNPLKFIRKRFSDGVIEEWLALQWWNLDMKIINENLPFIINGDIEMLKRKRKLLD 217
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215  


Chain C from PDB  Type:PROTEIN  Length:211
                                                                                                                                                                                                                                                   
               SCOP domains d4myoc_ C: automated matches                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eee.hhhh....eee....eee.....hhhh.ee.........eee....ee....eee.............hhhhhh..hhhhh...........eee....ee....ee....ee....ee....ee.......eeee....eeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4myo C   7 HGPDPENILPIKGNRNLQFIKPTITNENILVGEYSYYDSKRGESFEDQVLYHYEVIGDKLIIGRFCSIGPGTTFIMNGANHRMDGSTYPFHLFRMGWEKYMPSLKDLPLKGDIEIGNDVWIGRDVTIMPGVKIGDGAIIAAEAVVTKNVAPYSIVGGNPLKFIRKRFSDGVIEEWLALQWWNLDMKIINENLPFIINGDIEMLKRKRKLLD 217
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216
   Legend:   → Mismatch (orange background)
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  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 Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4MYO)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4MYO)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        VATA_STAAU | P26839: 4hur 4hus

(-) Related Entries Specified in the PDB File

4hur
4hus RELATED ID: CSGID-IDP91546 RELATED DB: TARGETTRACK