SMTL ID : 3vbn.1

Crystal Structure of the D94A mutant of AntD, an N-acyltransferase from Bacillus cereus in complex with dTDP and Coenzyme A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-trimer

Ligands

3 x COA: COENZYME A(Non-covalent)

COA.1: 19 residues within 4Å: Chain A: Y.107, I.110, A.111, F.113, F.150, M.166, K.168, V.180, P.181 Chain C: S.101, G.144, A.145, G.162, A.163, V.178, G.179, R.183, I.185, K.186 15 PLIP interactions: 7 interactions with chain A, 8 interactions with chain C Hydrophobic interactions: A:F.113, A:F.113, A:F.150, C:V.178 Hydrogen bonds: A:K.168, A:K.168, C:A.145, C:A.163, C:A.163, C:G.179, C:R.183 Salt bridges: A:K.168, A:K.168, C:K.186, C:K.186 COA.4: 19 residues within 4Å: Chain A: S.101, G.144, A.145, G.162, A.163, V.178, G.179, R.183, I.185, K.186 Chain B: Y.107, I.110, A.111, F.113, F.150, M.166, K.168, V.180, P.181 16 PLIP interactions: 7 interactions with chain B, 9 interactions with chain A Hydrophobic interactions: B:F.113, B:F.113, B:F.150, A:V.178 Hydrogen bonds: B:K.168, B:K.168, A:S.101, A:A.145, A:A.163, A:A.163, A:G.179 Salt bridges: B:K.168, B:K.168, A:R.183, A:K.186, A:K.186 COA.6: 20 residues within 4Å: Chain B: S.101, G.144, A.145, G.162, A.163, I.176, V.178, G.179, R.183, I.185, K.186 Chain C: Y.107, I.110, A.111, F.113, F.150, M.166, K.168, V.180, P.181 16 PLIP interactions: 7 interactions with chain C, 9 interactions with chain B Hydrophobic interactions: C:F.113, C:F.113, C:F.150, B:I.176, B:V.178 Hydrogen bonds: C:K.168, C:K.168, B:A.145, B:A.163, B:A.163, B:G.179, B:R.183 Salt bridges: C:K.168, C:K.168, B:K.186, B:K.186

3 x TYD: THYMIDINE-5'-DIPHOSPHATE(Non-covalent)

TYD.2: 8 residues within 4Å: Chain A: N.19, S.20, F.21, R.60, D.62, D.63 Chain B: Y.48, S.68 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:N.19, A:F.21 Hydrogen bonds: A:S.20, A:R.60, A:D.63, A:D.63, B:S.68 Salt bridges: A:R.60 pi-Cation interactions: A:R.60 pi-Stacking: B:Y.48 TYD.5: 10 residues within 4Å: Chain B: N.19, S.20, F.21, R.60, D.62, D.63 Chain C: Y.48, S.68, Y.86, P.121 12 PLIP interactions: 8 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:N.19, B:F.21, C:Y.86 Hydrogen bonds: B:S.20, B:D.63, B:D.63, C:Y.48, C:S.68 Salt bridges: B:R.60, B:R.60 pi-Cation interactions: B:R.60 pi-Stacking: C:Y.48 TYD.7: 9 residues within 4Å: Chain A: Y.48, S.68, Y.86 Chain C: N.19, S.20, F.21, R.60, D.62, D.63 11 PLIP interactions: 3 interactions with chain A, 8 interactions with chain C Hydrophobic interactions: A:Y.86, C:N.19, C:F.21 Hydrogen bonds: A:S.68, C:S.20, C:D.63, C:D.63 pi-Stacking: A:Y.48 Salt bridges: C:R.60, C:R.60 pi-Cation interactions: C:R.60

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 5 residues within 4Å: Chain A: Y.82, R.103 Chain B: R.103 Chain C: Y.82, R.103 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kubiak, R.L. et al., Structural Studies of AntD: An N-Acyltransferase Involved in the Biosynthesis of d-Anthrose. Biochemistry (2012)

Release Date

2012-01-25

Peptides

Galactoside O-acetyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
E

Galactoside O-acetyltransferase