SMTL ID : 4e12.1

Substrate-directed dual catalysis of dicarbonyl compounds by diketoreductase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

homo-dimer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: D.78, Q.81 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.78, A:Q.81 GOL.2: 4 residues within 4Å: Chain A: E.234, Y.281, R.282, Y.283 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.282 Water bridges: A:E.234, A:E.234, A:Y.281, A:Y.281 GOL.3: 3 residues within 4Å: Chain A: L.40, D.41, Y.75 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Y.75, A:Y.75 GOL.4: 2 residues within 4Å: Chain A: P.253, R.256 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.253 Water bridges: A:S.251 GOL.5: 6 residues within 4Å: Chain A: T.2, I.4, F.28, Q.169, F.173, A.176 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.2, A:I.4 GOL.10: 2 residues within 4Å: Chain B: D.78, Q.81 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.78, B:Q.81 GOL.11: 4 residues within 4Å: Chain B: E.234, Y.281, R.282, Y.283 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.282 Water bridges: B:R.223, B:E.234, B:Y.281 GOL.12: 3 residues within 4Å: Chain B: L.40, D.41, Y.75 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.41 Water bridges: B:Y.75, B:Y.75 GOL.13: 2 residues within 4Å: Chain B: P.253, R.256 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:P.253 Water bridges: B:S.251 GOL.14: 6 residues within 4Å: Chain B: T.2, I.4, F.28, Q.169, F.173, A.176 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.2, B:I.4

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.6: 11 residues within 4Å: Chain A: V.198, L.201, D.202, A.205, F.236, V.239, I.247, S.248, K.254, Q.255, F.258 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.202, A:E.206 1PE.15: 11 residues within 4Å: Chain B: V.198, L.201, D.202, A.205, F.236, V.239, I.247, S.248, K.254, Q.255, F.258 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.206

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

SO4.7: 3 residues within 4Å: Chain A: G.13, V.14, L.15 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.14, A:L.15 Water bridges: A:G.13, A:G.16 SO4.8: 7 residues within 4Å: Chain A: V.239, G.240, L.241, T.242, T.243, L.272, A.275 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.240, A:L.241, A:T.242, A:T.243 Water bridges: A:A.275 SO4.9: 4 residues within 4Å: Chain A: V.14, Q.18, N.146, H.147 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.18, A:N.146 Salt bridges: A:H.147 SO4.16: 3 residues within 4Å: Chain B: G.13, V.14, L.15 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:V.14, B:L.15 Water bridges: B:G.13, B:G.16 SO4.17: 7 residues within 4Å: Chain B: V.239, G.240, L.241, T.242, T.243, L.272, A.275 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.240, B:L.241, B:T.242, B:T.242, B:T.243, B:T.243 Water bridges: B:A.275 SO4.18: 4 residues within 4Å: Chain B: V.14, Q.18, N.146, H.147 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.18, B:N.146 Salt bridges: B:H.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lu, M. et al., Dual catalysis mode for the dicarbonyl reduction catalyzed by diketoreductase. Chem.Commun.(Camb.) (2012)

Release Date

2012-11-14

Peptides

Diketoreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Diketoreductase

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