SMTL ID : 2wkv.1

BIOSYNTHETIC THIOLASE FROM Z. RAMIGERA. COMPLEX OF THE N316D MUTANT WITH COENZYME A.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-tetramer

Ligands

10 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: K.298, R.302 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Water bridges: A:E.301, A:R.302, A:R.302, B:G.106 Salt bridges: A:R.302 SO4.2: 1 residues within 4Å: Chain A: K.366 4 PLIP interactions: 4 interactions with chain A Water bridges: A:Q.270, A:K.366, A:K.366 Salt bridges: A:K.366 SO4.3: 4 residues within 4Å: Chain A: S.260, A.262, E.263, R.266 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.260, A:E.263 Water bridges: A:R.266, A:R.266 Salt bridges: A:R.266 SO4.6: 3 residues within 4Å: Chain B: S.260, A.262, R.266 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.260, B:S.260 Water bridges: B:S.260, B:R.266 Salt bridges: B:R.266 SO4.7: 2 residues within 4Å: Chain B: K.298, R.302 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Water bridges: B:K.298, B:K.298, A:G.106 Salt bridges: B:K.298, B:R.302 SO4.8: 4 residues within 4Å: Chain B: R.41, I.199, V.200, P.201 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.41 Salt bridges: B:R.41 SO4.9: 2 residues within 4Å: Chain B: Y.153, K.286 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.153 Salt bridges: B:K.286 SO4.10: 2 residues within 4Å: Chain B: F.137, K.138 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.138 SO4.14: 4 residues within 4Å: Chain D: R.41, I.199, V.200, P.201 2 PLIP interactions: 2 interactions with chain D Water bridges: D:E.40 Salt bridges: D:R.41 SO4.15: 6 residues within 4Å: Chain D: A.8, S.9, R.41, A.42, Q.270, L.272 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:A.8, D:R.41 Salt bridges: D:K.366

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 6 residues within 4Å: Chain A: L.88, G.380, G.381, M.383 Chain B: N.65, R.68 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.380, B:N.65 NA.11: 2 residues within 4Å: Chain B: I.293, R.297 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.297

4 x COA: COENZYME A(Non-covalent)

COA.5: 17 residues within 4Å: Chain A: C.89, L.148, H.156, M.157, Q.183, R.220, S.227, L.231, F.235, A.243, G.244, S.247, L.249, M.288, A.318, F.319, I.350 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:L.148 Hydrogen bonds: A:Q.183, A:Q.183, A:R.220, A:S.247 Water bridges: A:R.220, A:R.220, A:M.228, A:G.248, A:L.249 pi-Cation interactions: A:R.220 Salt bridges: C:K.208 COA.12: 21 residues within 4Å: Chain B: C.89, L.148, H.156, M.157, R.220, S.227, M.228, L.231, F.235, A.243, G.244, S.247, G.248, L.249, M.288, A.318, F.319, H.348, C.378 Chain C: K.133, M.134 12 PLIP interactions: 10 interactions with chain B, 1 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: B:F.235 Hydrogen bonds: B:R.220, B:R.220, B:S.247, B:S.247, B:S.247 Water bridges: B:Q.183, B:G.244 pi-Cation interactions: B:R.220, B:R.220 Salt bridges: D:K.208, C:K.133 COA.13: 18 residues within 4Å: Chain C: C.89, L.148, H.156, M.157, R.220, S.227, M.228, L.231, F.235, A.243, G.244, S.247, G.248, L.249, M.288, A.318, F.319, H.348 10 PLIP interactions: 9 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:Q.183, C:R.220, C:R.220, C:S.247, A:K.208 Water bridges: C:Y.218, C:S.247, C:L.249 pi-Cation interactions: C:R.220, C:R.220 COA.16: 18 residues within 4Å: Chain D: C.89, L.148, H.156, M.157, Q.183, R.220, S.227, M.228, L.231, F.235, A.243, G.244, S.247, L.249, M.288, A.318, F.319, H.348 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:L.148, D:L.249 Hydrogen bonds: D:Q.183, D:R.220, D:R.220, D:S.247 Water bridges: D:A.243, D:G.244 pi-Cation interactions: D:R.220, D:R.220

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Merilainen, G. et al., The Thiolase Reaction Mechanism: The Importance of Asn316 and His348 for Stabilizing the Enolate Intermediate of the Claisen Condensation. Biochemistry (2009)

Release Date

2009-11-03

Peptides

ACETYL-COA ACETYLTRANSFERASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

ACETYL-COA ACETYLTRANSFERASE