SMTL ID : 8ags.1

Cyclohexane epoxide soak of epoxide hydrolase from metagenomic source ch65 resulting in halogenated compound in the active site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.61 Å

Oligo State

homo-dimer

Ligands

2 x 2CH: 2-CHLOROPHENOL(Non-covalent)

2CH.1: 9 residues within 4Å: Chain A: D.101, W.102, I.105, P.127, Y.148, Y.209, L.213, I.244 Ligands: EDO.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.209, A:L.213, A:I.244 Hydrogen bonds: A:Y.148, A:Y.209 2CH.12: 9 residues within 4Å: Chain B: D.101, W.102, I.105, P.127, Y.148, Y.209, L.213, I.244 Ligands: P6G.11 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.209, B:L.213, B:I.244 Hydrogen bonds: B:Y.148, B:Y.209

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

EDO.2: 4 residues within 4Å: Chain A: R.141, K.145, S.245, K.246 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.246 Water bridges: A:K.145, A:E.239, A:E.239, A:I.244 EDO.4: 5 residues within 4Å: Chain A: M.173, S.177 Chain B: L.140 Ligands: PGE.3, EDO.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.177 EDO.5: 9 residues within 4Å: Chain A: F.34, D.101, Y.148, M.173, Y.209, H.270, W.271 Ligands: 2CH.1, EDO.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.101 EDO.6: 4 residues within 4Å: Chain A: R.75, A.211, N.212, I.217 No protein-ligand interaction detected (PLIP) EDO.7: 3 residues within 4Å: Chain A: F.167, V.193, S.197 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.197 EDO.8: 1 residues within 4Å: Chain A: F.113 No protein-ligand interaction detected (PLIP) EDO.13: 6 residues within 4Å: Chain B: N.138, S.139, L.140, R.141, D.247 Ligands: PGE.3 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.140, B:R.141, B:D.247 EDO.14: 4 residues within 4Å: Chain B: R.141, K.145, S.245, K.246 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.246 EDO.15: 1 residues within 4Å: Chain B: Y.39 No protein-ligand interaction detected (PLIP)

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.3: 11 residues within 4Å: Chain A: F.169, N.172, M.173, Q.176 Chain B: K.137, N.138, S.139, L.140, L.143 Ligands: EDO.4, EDO.13 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.172 Water bridges: A:A.168

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

CL.9: 4 residues within 4Å: Chain A: F.265, P.266, E.267, C.268 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain A: K.6, H.7 Ligand excluded by PLIP

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.11: 16 residues within 4Å: Chain A: K.137, N.138, L.140, L.143 Chain B: F.34, D.101, W.147, Y.148, N.172, M.173, Q.176, S.177, Y.209, H.270, W.271 Ligands: 2CH.12 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:D.101, B:Y.148, B:N.172 Water bridges: A:N.138, A:L.140

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Isupov, M.N. et al., Complexes of epoxide hydrolase from metagenomic source ch65. To Be Published

Release Date

2023-08-16

Peptides

Alpha/beta epoxide hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

Alpha/beta epoxide hydrolase

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