SMTL ID : 2puj.1

Crystal Structure of the S112A/H265A double mutant of a C-C hydrolase, BphD from Burkholderia xenovorans LB400, in complex with its substrate HOPDA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-tetramer

Ligands

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

NA.1: 2 residues within 4Å: Chain A: S.180 Ligands: MLI.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.180 NA.4: 2 residues within 4Å: Chain B: S.180 Ligands: MLI.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.180 NA.7: 2 residues within 4Å: Chain C: S.180 Ligands: MLI.8 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.180 NA.10: 2 residues within 4Å: Chain D: S.180 Ligands: MLI.11 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:S.180

4 x MLI: MALONATE ION(Non-functional Binders)

MLI.2: 3 residues within 4Å: Chain A: S.180, I.182 Ligands: NA.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.180 Water bridges: A:S.180 MLI.5: 3 residues within 4Å: Chain B: S.180, I.182 Ligands: NA.4 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.180 Water bridges: B:S.180 MLI.8: 3 residues within 4Å: Chain C: S.180, I.182 Ligands: NA.7 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.180 Water bridges: C:S.180 MLI.11: 3 residues within 4Å: Chain D: S.180, I.182 Ligands: NA.10 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:S.180 Water bridges: D:S.180

4 x HPZ: (2E,4E)-2-HYDROXY-6-OXO-6-PHENYLHEXA-2,4-DIENOIC ACID(Non-covalent)

HPZ.3: 17 residues within 4Å: Chain A: G.41, G.42, G.43, A.46, A.112, M.113, G.138, G.139, I.153, L.156, M.171, F.175, R.190, L.213, W.216, F.239, V.240 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:I.153, A:F.175, A:L.213, A:W.216, A:V.240 Hydrogen bonds: A:G.42, A:G.43, A:M.113, A:R.190, A:R.190 Water bridges: A:G.41 Salt bridges: A:R.190 HPZ.6: 17 residues within 4Å: Chain B: G.41, G.42, G.43, A.46, A.112, M.113, G.138, G.139, I.153, L.156, M.171, F.175, R.190, L.213, W.216, F.239, V.240 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:I.153, B:F.175, B:L.213, B:W.216, B:V.240 Hydrogen bonds: B:G.42, B:G.43, B:M.113, B:R.190, B:R.190 Water bridges: B:G.41 Salt bridges: B:R.190 HPZ.9: 17 residues within 4Å: Chain C: G.41, G.42, G.43, A.46, A.112, M.113, G.138, G.139, I.153, L.156, M.171, F.175, R.190, L.213, W.216, F.239, V.240 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:I.153, C:F.175, C:L.213, C:W.216, C:V.240 Hydrogen bonds: C:G.42, C:G.43, C:M.113, C:R.190, C:R.190 Water bridges: C:G.41 Salt bridges: C:R.190 HPZ.12: 17 residues within 4Å: Chain D: G.41, G.42, G.43, A.46, A.112, M.113, G.138, G.139, I.153, L.156, M.171, F.175, R.190, L.213, W.216, F.239, V.240 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:I.153, D:F.175, D:L.213, D:W.216, D:V.240 Hydrogen bonds: D:G.42, D:G.43, D:M.113, D:R.190, D:R.190 Water bridges: D:G.41 Salt bridges: D:R.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Horsman, G.P. et al., The Tautomeric Half-reaction of BphD, a C-C Bond Hydrolase: KINETIC AND STRUCTURAL EVIDENCE SUPPORTING A KEY ROLE FOR HISTIDINE 265 OF THE CATALYTIC TRIAD. J.Biol.Chem. (2007)

Release Date

2007-05-22

Peptides

2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase

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