SMTL ID : 6are.1

Aspergillus fumigatus Cytosolic Thiolase in complex with two tetrahedral reaction intermediates and ammonium ions

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-2-2-mer

Ligands

3 x COA: COENZYME A(Non-covalent)

COA.1: 20 residues within 4Å: Chain A: C.93, L.153, M.162, Y.188, E.225, N.228, L.229, N.230, K.233, L.234, I.237, F.241, A.250, P.251, S.254, P.255, F.295, A.325, F.326, H.355 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:A.250 Hydrogen bonds: A:Y.188, A:N.230, A:K.233, A:S.254, A:S.254, A:S.254 Water bridges: A:Y.188, A:L.256 Salt bridges: A:K.233 COA.5: 19 residues within 4Å: Chain B: C.93, L.153, M.162, Y.188, N.228, L.229, N.230, K.233, L.234, I.237, A.250, P.251, S.254, P.255, L.256, F.295, A.325, F.326, H.355 14 PLIP interactions: 11 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:L.153, B:A.250, B:L.256 Hydrogen bonds: B:Y.188, B:N.230, B:S.254, B:S.254, B:S.254, B:L.256 Water bridges: B:Y.188, C:K.138, C:K.138, C:K.138 Salt bridges: B:K.233 COA.16: 21 residues within 4Å: Chain D: C.93, L.153, M.162, Y.188, E.225, N.228, L.229, N.230, L.234, I.237, F.241, A.250, P.251, S.254, L.256, F.295, A.325, F.326, H.355, I.357 Ligands: ACT.17 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:F.241 Hydrogen bonds: D:Y.188, D:N.230, D:S.254, D:S.254, D:S.254, D:L.256 Water bridges: D:G.163, D:A.250

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

CL.2: 4 residues within 4Å: Chain A: N.386, G.388, G.390 Chain B: R.72 Ligand excluded by PLIP CL.6: 5 residues within 4Å: Chain A: R.72 Chain B: N.386, G.387, G.388, G.390 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain C: N.386, G.388, G.390 Chain D: R.72 Ligand excluded by PLIP CL.18: 4 residues within 4Å: Chain C: R.72 Chain D: N.386, G.388, G.390 Ligand excluded by PLIP

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

NH4.3: 5 residues within 4Å: Chain A: Y.188, A.250, P.251, S.253, V.351 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.253 Water bridges: A:Y.188 NH4.4: 3 residues within 4Å: Chain A: D.201, E.202, I.204 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.204 Water bridges: A:K.44 NH4.7: 5 residues within 4Å: Chain B: Y.188, A.250, P.251, S.253, V.351 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.188, B:A.250 NH4.8: 3 residues within 4Å: Chain B: D.201, E.202, I.204 3 PLIP interactions: 3 interactions with chain B Water bridges: B:K.44, B:E.202, B:I.204 NH4.9: 3 residues within 4Å: Chain B: L.42, V.45, L.48 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:L.48 Water bridges: B:G.47 NH4.12: 5 residues within 4Å: Chain C: Y.188, A.250, P.251, S.253, V.351 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Y.188, C:S.253 NH4.13: 3 residues within 4Å: Chain C: D.201, E.202, I.204 2 PLIP interactions: 2 interactions with chain C Water bridges: C:K.44, C:K.44 NH4.14: 3 residues within 4Å: Chain C: L.42, V.45, L.48 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:L.48 Water bridges: C:G.47 NH4.19: 5 residues within 4Å: Chain D: Y.188, A.250, P.251, S.253, V.351 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Y.188 NH4.20: 3 residues within 4Å: Chain D: D.201, E.202, I.204 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:I.204 Water bridges: D:K.44

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.10: 7 residues within 4Å: Chain C: V.92, C.93, G.152, N.386, G.387 Chain D: Q.68 Ligands: ACO.15 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:V.92 Hydrogen bonds: C:C.93, C:G.387 ACT.17: 8 residues within 4Å: Chain C: Q.68 Chain D: V.92, C.93, G.152, M.162, N.386, G.387 Ligands: COA.16 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:V.92 Hydrogen bonds: D:C.93, D:G.387

1 x ACO: ACETYL COENZYME *A(Non-covalent)

ACO.15: 23 residues within 4Å: Chain C: C.93, L.153, M.162, Y.188, N.228, L.229, N.230, L.234, I.237, F.241, A.250, P.251, S.254, L.256, F.295, A.325, F.326, H.355, I.357, C.385, N.386, G.387 Ligands: ACT.10 11 PLIP interactions: 10 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:F.241, C:L.256, C:F.295 Hydrogen bonds: C:Y.188, C:N.230, C:S.254 Water bridges: C:M.162, C:Y.188, C:P.255, C:L.256, B:Y.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marshall, A.C. et al., Structure of Aspergillus fumigatus Cytosolic Thiolase: Trapped Tetrahedral Reaction Intermediates and Activation by Monovalent Cations. Acs Catalysis (2018)

Release Date

2018-05-30

Peptides

Acetyl-CoA acetyltransferase, acetylated enzyme: AB
Acetyl-CoA acetyltransferase: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Acetyl-CoA acetyltransferase, acetylated enzyme

Acetyl-CoA acetyltransferase

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