SMTL ID : 5f38.1

X-ray crystal structure of a thiolase from Escherichia coli at 1.8 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x COZ: COENZYME A(Non-covalent)

COZ.1: 21 residues within 4Å: Chain A: C.88, L.149, H.157, M.158, Q.184, K.221, S.224, L.229, L.232, A.235, F.236, A.244, G.245, S.248, G.249, I.250, M.289, A.319, F.320, H.349 Chain D: R.136 9 PLIP interactions: 7 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:A.235 Hydrogen bonds: A:Q.184, A:K.221, A:S.224, A:S.248, A:I.250 Water bridges: A:G.249 Salt bridges: D:R.136, D:R.136

31 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 3 residues within 4Å: Chain A: T.172, R.173, E.174 Ligand excluded by PLIP EDO.3: 5 residues within 4Å: Chain A: G.19, S.20, A.22, S.23, F.212 Ligand excluded by PLIP EDO.4: 2 residues within 4Å: Chain A: H.182, R.185 Ligand excluded by PLIP EDO.5: 4 residues within 4Å: Chain A: S.25, I.27, D.28, K.72 Ligand excluded by PLIP EDO.6: 3 residues within 4Å: Chain A: L.181, R.185, S.224 Ligand excluded by PLIP EDO.7: 4 residues within 4Å: Chain A: S.25, L.61, L.120 Ligands: EDO.8 Ligand excluded by PLIP EDO.8: 2 residues within 4Å: Chain A: L.120 Ligands: EDO.7 Ligand excluded by PLIP EDO.9: 4 residues within 4Å: Chain B: S.248, G.249, I.250 Ligands: EDO.18 Ligand excluded by PLIP EDO.10: 7 residues within 4Å: Chain B: S.25, A.26, L.57, L.61, N.117, L.120, A.121 Ligand excluded by PLIP EDO.11: 8 residues within 4Å: Chain B: R.173, D.177, L.229, G.230, L.232, T.241, T.243, N.246 Ligand excluded by PLIP EDO.12: 6 residues within 4Å: Chain A: Q.106 Chain B: Q.103, K.277, S.278, Y.279, L.303 Ligand excluded by PLIP EDO.13: 3 residues within 4Å: Chain B: F.17, N.18 Chain C: R.136 Ligand excluded by PLIP EDO.14: 5 residues within 4Å: Chain B: T.172, R.173, Q.176, D.177, E.178 Ligand excluded by PLIP EDO.15: 8 residues within 4Å: Chain B: L.308, A.309, I.311, I.314, G.332, F.333, D.334, K.337 Ligand excluded by PLIP EDO.16: 3 residues within 4Å: Chain B: V.205, V.213, F.214 Ligand excluded by PLIP EDO.17: 1 residues within 4Å: Chain B: P.234 Ligand excluded by PLIP EDO.18: 5 residues within 4Å: Chain B: H.157, G.159, A.235, F.236 Ligands: EDO.9 Ligand excluded by PLIP EDO.20: 4 residues within 4Å: Chain C: G.21, S.22, F.214 Ligands: EDO.24 Ligand excluded by PLIP EDO.21: 4 residues within 4Å: Chain C: V.286, V.296, P.297, N.332 Ligand excluded by PLIP EDO.22: 3 residues within 4Å: Chain C: K.223, L.234 Ligands: 5UG.19 Ligand excluded by PLIP EDO.23: 5 residues within 4Å: Chain C: T.209, R.210, K.211, K.212, T.213 Ligand excluded by PLIP EDO.24: 4 residues within 4Å: Chain C: N.20, G.21, E.220 Ligands: EDO.20 Ligand excluded by PLIP EDO.25: 3 residues within 4Å: Chain C: M.3, N.5 Chain D: A.1 Ligand excluded by PLIP EDO.26: 2 residues within 4Å: Chain C: S.27, L.122 Ligand excluded by PLIP EDO.27: 3 residues within 4Å: Chain C: Q.300, K.301, Q.304 Ligand excluded by PLIP EDO.28: 5 residues within 4Å: Chain C: A.282, S.283 Chain D: D.51, E.52, Q.108 Ligand excluded by PLIP EDO.29: 7 residues within 4Å: Chain C: V.7, P.274, L.275, A.276, R.277, E.393, R.394 Ligand excluded by PLIP EDO.31: 3 residues within 4Å: Chain C: D.51 Chain D: A.282, S.283 Ligand excluded by PLIP EDO.32: 5 residues within 4Å: Chain A: D.137 Chain D: Y.143, D.144, L.147, R.148 Ligand excluded by PLIP EDO.33: 1 residues within 4Å: Chain D: Q.369 Ligand excluded by PLIP EDO.34: 6 residues within 4Å: Chain D: A.168, K.169, G.172, I.173, T.174, T.243 Ligand excluded by PLIP

2 x 5UG: [(3~{S})-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-4-[[3-oxidanylidene-3-(2-sulfanylethylamino)propyl]amino]butyl] phosphono hydrogen phosphate(Non-covalent)

5UG.19: 15 residues within 4Å: Chain B: R.134 Chain C: C.90, L.151, H.159, M.160, F.238, A.246, S.250, G.251, I.252, M.291, A.321, F.322, H.351 Ligands: EDO.22 10 PLIP interactions: 3 interactions with chain B, 7 interactions with chain C Water bridges: B:R.134, C:G.251, C:I.252 Salt bridges: B:R.134, B:R.134 Hydrophobic interactions: C:L.151, C:F.238, C:A.246 Hydrogen bonds: C:S.250, C:I.252 5UG.30: 14 residues within 4Å: Chain D: C.90, L.151, H.159, M.160, A.237, F.238, A.246, S.250, G.251, I.252, M.291, A.321, F.322, H.351 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:L.151, D:A.237 Hydrogen bonds: D:S.250, D:S.250, D:S.250, D:I.252 Water bridges: D:K.223

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ithayaraja, M. et al., Crystal structure of a thiolase from Escherichia coli at 1.8 angstrom resolution. Acta Crystallogr.,Sect.F (2016)

Release Date

2016-07-13

Peptides

Acetyl-CoA acetyltransferase: A
Acetyl-CoA acetyltransferase: B
Acetyl-CoA acetyltransferase: C
Acetyl-CoA acetyltransferase: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
D

D
C

Acetyl-CoA acetyltransferase

Acetyl-CoA acetyltransferase

Acetyl-CoA acetyltransferase

Acetyl-CoA acetyltransferase

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