SMTL ID : 3r3a.1

Crystal structure of Arthrobacter sp. strain SU 4-hydroxybenzoyl CoA thioesterase mutant Q58A complexed with 4-hydroxybenzoic acid and CoA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x COA: COENZYME A(Non-covalent)

COA.1: 20 residues within 4Å: Chain A: M.90, V.92, G.93, Q.94, A.145, R.147, P.148, R.150 Chain B: V.63, G.65, F.100, F.101, R.102, P.103 Chain C: H.117, G.119, S.120, T.121, T.122 Ligands: PHB.2 17 PLIP interactions: 4 interactions with chain C, 5 interactions with chain B, 8 interactions with chain A Hydrogen bonds: C:S.120, C:T.121, C:T.122, B:F.100, A:G.93, A:G.93, A:P.148 Salt bridges: C:H.117, B:R.102, A:R.150 Hydrophobic interactions: B:F.100, A:V.92, A:A.145 Water bridges: B:Y.68, B:R.102 pi-Cation interactions: A:R.150, A:R.150 COA.3: 22 residues within 4Å: Chain A: L.62, V.63, H.64, G.65, F.100, F.101, R.102, P.103 Chain B: M.90, V.92, G.93, Q.94, A.145, R.147, P.148, R.150 Chain D: H.117, G.119, S.120, T.121, T.122 Ligands: PHB.4 18 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A, 5 interactions with chain D Hydrophobic interactions: B:V.92, B:Q.94, B:A.145, A:F.100 Hydrogen bonds: B:G.93, B:G.93, B:P.148, A:F.100, D:S.120, D:T.121, D:T.121, D:T.122 Water bridges: B:R.150 Salt bridges: B:R.150, A:R.102, D:H.117 pi-Cation interactions: B:R.150, B:R.150 COA.5: 20 residues within 4Å: Chain A: H.117, G.119, S.120, T.121, T.122 Chain C: M.90, V.92, G.93, Q.94, A.145, R.147, P.148, R.150 Chain D: V.63, G.65, F.100, F.101, R.102, P.103 Ligands: PHB.6 16 PLIP interactions: 4 interactions with chain A, 8 interactions with chain C, 4 interactions with chain D Hydrogen bonds: A:S.120, A:T.121, A:T.122, C:G.93, C:G.93, C:P.148, D:F.100 Salt bridges: A:H.117, C:R.150, D:R.102 Hydrophobic interactions: C:V.92, C:A.145, D:F.100 pi-Cation interactions: C:R.150, C:R.150 Water bridges: D:R.102 COA.7: 22 residues within 4Å: Chain B: H.117, G.119, S.120, T.121, T.122 Chain C: L.62, V.63, H.64, G.65, F.100, F.101, R.102, P.103 Chain D: M.90, V.92, G.93, Q.94, A.145, R.147, P.148, R.150 Ligands: PHB.8 19 PLIP interactions: 6 interactions with chain B, 3 interactions with chain C, 10 interactions with chain D Hydrogen bonds: B:S.120, B:T.121, B:T.122, C:F.100, D:G.93, D:G.93, D:P.148 Water bridges: B:T.121, B:T.121, D:R.150 Salt bridges: B:H.117, C:R.102, D:R.150 Hydrophobic interactions: C:F.100, D:V.92, D:Q.94, D:A.145 pi-Cation interactions: D:R.150, D:R.150

4 x PHB: P-HYDROXYBENZOIC ACID(Non-covalent)

PHB.2: 12 residues within 4Å: Chain A: L.15, E.73, M.74, T.77, E.78, V.92, G.93 Chain B: A.58, W.60, H.64, G.65 Ligands: COA.1 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:M.74, A:T.77, B:A.58 Hydrogen bonds: A:E.73, A:E.78, A:G.93, B:G.65 Water bridges: A:D.31, A:D.31 pi-Stacking: B:H.64 PHB.4: 12 residues within 4Å: Chain A: A.58, W.60, H.64, G.65 Chain B: L.15, E.73, M.74, T.77, E.78, V.92, G.93 Ligands: COA.3 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:M.74, B:T.77, A:A.58 Hydrogen bonds: B:T.77, B:G.93, A:G.65 Water bridges: B:D.31, B:D.31 pi-Stacking: A:H.64 PHB.6: 12 residues within 4Å: Chain C: L.15, E.73, M.74, T.77, E.78, V.92, G.93 Chain D: A.58, W.60, H.64, G.65 Ligands: COA.5 9 PLIP interactions: 3 interactions with chain D, 6 interactions with chain C Hydrophobic interactions: D:A.58, C:M.74, C:T.77 Hydrogen bonds: D:G.65, C:T.77, C:G.93 pi-Stacking: D:H.64 Water bridges: C:D.31, C:D.31 PHB.8: 12 residues within 4Å: Chain C: A.58, W.60, H.64, G.65 Chain D: L.15, E.73, M.74, T.77, E.78, V.92, G.93 Ligands: COA.7 10 PLIP interactions: 3 interactions with chain C, 7 interactions with chain D Hydrophobic interactions: C:A.58, D:M.74, D:T.77 Hydrogen bonds: C:G.65, D:E.73, D:E.78, D:G.93 pi-Stacking: C:H.64 Water bridges: D:D.31, D:D.31

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Song, F. et al., The Catalytic Mechanism of the Hotdog-fold Enzyme Superfamily 4-Hydroxybenzoyl-CoA Thioesterase from Arthrobacter sp. Strain SU. Biochemistry (2012)

Release Date

2012-03-28

Peptides

4-hydroxybenzoyl-CoA thioesterase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

4-hydroxybenzoyl-CoA thioesterase

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