SMTL ID : 1khr.1 (1 other biounit)

Crystal Structure of Vat(D) in Complex with Virginiamycin and Coenzyme A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-trimer

Ligands

2 x VIR: VIRGINIAMYCIN M1(Non-covalent)

VIR.1: 12 residues within 4Å: Chain A: V.17, Y.37, D.39 Chain B: Y.54, I.56, G.79, N.81, H.82, N.92, L.93, P.103 Ligands: COA.3 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.54, B:I.56, B:P.103, A:V.17 Hydrogen bonds: B:N.92, A:D.39 Water bridges: B:G.79, B:N.81 VIR.2: 12 residues within 4Å: Chain A: Y.54, G.79, A.80, N.81, H.82, N.92, L.93, M.102, P.103 Chain C: Y.37, D.39 Ligands: COA.5 7 PLIP interactions: 1 interactions with chain C, 6 interactions with chain A Hydrogen bonds: C:D.39, A:N.92 Hydrophobic interactions: A:Y.54, A:L.93, A:P.103 Water bridges: A:G.79, A:N.81

3 x COA: COENZYME A(Non-covalent)

COA.3: 16 residues within 4Å: Chain A: W.121, G.123, K.124, A.141, A.142, L.155, G.157, G.158, I.164 Chain B: A.80, H.82, M.84, M.129, V.147, P.160 Ligands: VIR.1 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:A.80, B:V.147, A:K.124, A:A.142 Hydrophobic interactions: A:A.141 COA.4: 17 residues within 4Å: Chain B: G.70, W.121, G.123, K.124, A.141, A.142, L.155, G.157, G.158, I.164 Chain C: A.80, H.82, M.84, M.129, V.147, K.148, P.160 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:W.121, B:A.141, B:L.155 Hydrogen bonds: B:K.124, B:A.142, B:G.158, C:V.147 Water bridges: B:A.142 Salt bridges: B:K.165 COA.5: 18 residues within 4Å: Chain A: A.80, H.82, M.84, M.129, V.147, K.148, P.160 Chain C: G.70, W.121, G.123, K.124, A.141, A.142, L.155, G.157, G.158, I.164 Ligands: VIR.2 9 PLIP interactions: 7 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:W.121, C:A.141, C:L.155 Hydrogen bonds: C:K.124, C:A.142, C:G.158, A:A.80 Water bridges: C:A.142, A:N.159

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sugantino, M. et al., Crystal structure of Vat(D): an acetyltransferase that inactivates streptogramin group A antibiotics. Biochemistry (2002)

Release Date

2002-02-20

Peptides

STREPTOGRAMIN A ACETYLTRANSFERASE: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

STREPTOGRAMIN A ACETYLTRANSFERASE

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