SMTL ID : 7ldv.1

Zoogloea ramigera biosynthetic thiolase Q183Y/Y218E/delH221/S227K mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: S.266, A.268, R.272 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.266 Salt bridges: A:R.272 SO4.2: 2 residues within 4Å: Chain A: K.304, R.308 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.304, A:R.308 SO4.3: 4 residues within 4Å: Chain A: R.48, I.206, V.207, P.208 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.48 SO4.7: 3 residues within 4Å: Chain A: G.113 Chain B: K.304, R.308 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.304, B:R.308 SO4.8: 3 residues within 4Å: Chain B: S.266, A.268, R.272 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.266, B:S.266 Salt bridges: B:R.272 SO4.9: 5 residues within 4Å: Chain B: E.47, R.48, I.206, V.207, P.208 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.48 SO4.12: 4 residues within 4Å: Chain C: S.266, A.268, E.269, R.272 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.266, C:S.266 Salt bridges: C:R.272 SO4.19: 4 residues within 4Å: Chain D: S.266, A.268, E.269, R.272 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:S.266, D:S.266, D:E.269 Water bridges: D:R.272 Salt bridges: D:R.272 SO4.21: 4 residues within 4Å: Chain C: G.113 Chain D: K.304, R.308 Ligands: CL.16 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:K.304, D:R.308 SO4.22: 2 residues within 4Å: Chain D: E.269, R.273 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:E.269 Salt bridges: D:R.273

4 x COA: COENZYME A(Non-covalent)

COA.4: 18 residues within 4Å: Chain A: C.96, L.155, H.163, M.164, Y.190, R.227, M.234, L.237, A.249, S.253, G.254, L.255, M.294, A.324, F.325, H.354, I.356 Chain D: M.141 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.190, A:R.227, A:S.253, A:S.253 Water bridges: A:L.255 pi-Cation interactions: A:R.227 COA.10: 18 residues within 4Å: Chain B: C.96, L.155, H.163, M.164, Y.190, R.227, L.237, A.240, F.241, A.249, S.253, G.254, L.255, M.294, F.325, H.354 Chain C: K.140, M.141 13 PLIP interactions: 4 interactions with chain C, 9 interactions with chain B Water bridges: C:K.140, C:K.140 Salt bridges: C:K.140, C:K.140 Hydrophobic interactions: B:A.240, B:F.241, B:A.249, B:L.255 Hydrogen bonds: B:Y.190, B:R.227, B:S.253, B:L.255 pi-Cation interactions: B:R.227 COA.13: 18 residues within 4Å: Chain B: M.141 Chain C: C.96, L.155, H.163, M.164, Y.190, R.227, M.234, L.237, A.240, F.241, A.249, S.253, L.255, M.294, A.324, F.325, H.354 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.255, C:L.255 Hydrogen bonds: C:Y.190, C:R.227, C:S.253, C:S.253 pi-Cation interactions: C:R.227 COA.20: 18 residues within 4Å: Chain A: M.141 Chain D: C.96, L.155, H.163, M.164, Y.190, R.227, M.234, L.237, A.240, A.249, G.250, S.253, G.254, M.294, A.324, F.325, H.354 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:A.240 Hydrogen bonds: D:Y.190, D:R.227, D:S.253, D:S.253 pi-Cation interactions: D:R.227

4 x NH4: AMMONIUM ION(Non-functional Binders)

NH4.5: 5 residues within 4Å: Chain A: Y.190, A.249, G.250, A.252, I.350 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.190, A:Y.190 NH4.11: 5 residues within 4Å: Chain B: Y.190, A.249, G.250, A.252, I.350 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.190, B:I.350 Water bridges: B:E.225, B:E.225 NH4.14: 5 residues within 4Å: Chain C: Y.190, A.249, G.250, A.252, I.350 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:I.350 Water bridges: C:Y.190, C:G.254 NH4.23: 5 residues within 4Å: Chain D: Y.190, A.249, G.250, A.252, I.350 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:A.249 Water bridges: D:G.254

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

CL.6: 2 residues within 4Å: Chain A: R.227, K.233 Ligand excluded by PLIP CL.15: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.16: 4 residues within 4Å: Chain C: G.113, A.115, S.116 Ligands: SO4.21 Ligand excluded by PLIP CL.17: 1 residues within 4Å: Chain C: R.48 Ligand excluded by PLIP CL.18: 1 residues within 4Å: Chain C: K.304 Ligand excluded by PLIP CL.24: 1 residues within 4Å: Chain D: R.48 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marshall, A.C. et al., Engineering potassium activation into biosynthetic thiolase. Biochem.J. (2021)

Release Date

2021-09-01

Peptides

Acetyl-CoA acetyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Acetyl-CoA acetyltransferase