SMTL ID : 5kvc.1

Thermostable mutant of halohydrin dehalogenase (HheC)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

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

CL.1: 7 residues within 4Å: Chain A: F.12, P.175, N.176, Y.177, L.178, Y.187 Ligands: IMD.2 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: E.58, A.60, E.61 Ligand excluded by PLIP CL.9: 7 residues within 4Å: Chain B: F.12, P.175, N.176, Y.177, L.178, Y.187 Ligands: IMD.10 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain B: E.56, Q.57, E.58, E.61 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain B: H.179, T.213, Q.214 Ligand excluded by PLIP CL.16: 7 residues within 4Å: Chain C: F.12, P.175, N.176, Y.177, L.178, Y.187 Ligands: IMD.17 Ligand excluded by PLIP CL.19: 3 residues within 4Å: Chain C: E.58, A.60, E.61 Ligand excluded by PLIP CL.24: 7 residues within 4Å: Chain D: F.12, P.175, N.176, Y.177, L.178, Y.187 Ligands: IMD.25 Ligand excluded by PLIP CL.26: 4 residues within 4Å: Chain D: E.56, Q.57, E.58, E.61 Ligand excluded by PLIP CL.27: 3 residues within 4Å: Chain D: H.179, T.213, Q.214 Ligand excluded by PLIP

4 x IMD: IMIDAZOLE(Non-covalent)

IMD.2: 8 residues within 4Å: Chain A: S.132, T.134, Y.145, P.175, N.176, F.186, Y.187 Ligands: CL.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.132, A:Y.145 IMD.10: 8 residues within 4Å: Chain B: S.132, T.134, Y.145, P.175, N.176, F.186, Y.187 Ligands: CL.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.132, B:Y.145 IMD.17: 8 residues within 4Å: Chain C: S.132, T.134, Y.145, P.175, N.176, F.186, Y.187 Ligands: CL.16 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.132 IMD.25: 8 residues within 4Å: Chain D: S.132, T.134, Y.145, P.175, N.176, F.186, Y.187 Ligands: CL.24 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:S.132

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

NA.3: 1 residues within 4Å: Chain A: S.55 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.55, A:S.55 NA.13: 1 residues within 4Å: Chain B: S.55 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.55, B:E.56 NA.18: 1 residues within 4Å: Chain C: S.55 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.55 Water bridges: C:S.55 NA.28: 1 residues within 4Å: Chain D: S.55 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.55 Water bridges: D:E.56, D:E.56

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

EDO.5: 9 residues within 4Å: Chain A: K.10, H.11, F.12, G.13, G.14, M.15, S.180, E.181, Q.214 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.11, A:G.14, A:M.15, A:E.181 EDO.6: 3 residues within 4Å: Chain A: W.192, H.198 Chain D: P.250 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D Water bridges: A:W.192 Hydrogen bonds: D:P.250 EDO.7: 2 residues within 4Å: Chain A: H.11, P.184 No protein-ligand interaction detected (PLIP) EDO.8: 5 residues within 4Å: Chain A: R.98, E.102 Chain B: R.98, V.101, E.102 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:E.102, A:E.102, B:E.102, B:E.102 EDO.14: 9 residues within 4Å: Chain B: K.10, H.11, F.12, G.13, G.14, M.15, S.180, E.181, Q.214 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:H.11, B:G.14, B:M.15, B:E.181, B:E.181 Water bridges: B:D.182 EDO.15: 6 residues within 4Å: Chain B: N.157, G.234, Q.235, I.236 Chain D: F.136, W.238 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.234, B:I.236 Water bridges: B:N.157, B:Q.235 EDO.20: 9 residues within 4Å: Chain C: K.10, H.11, F.12, G.13, G.14, M.15, S.180, E.181, Q.214 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:H.11, C:G.14, C:M.15, C:E.181, C:E.181 EDO.21: 3 residues within 4Å: Chain B: P.250 Chain C: W.192, H.198 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Water bridges: C:W.192 Hydrogen bonds: B:P.250 EDO.22: 2 residues within 4Å: Chain C: H.11, P.184 1 PLIP interactions: 1 interactions with chain C Water bridges: C:Y.185 EDO.23: 5 residues within 4Å: Chain C: R.98, E.102 Chain D: R.98, V.101, E.102 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:E.102, D:E.102 EDO.29: 9 residues within 4Å: Chain D: K.10, H.11, F.12, G.13, G.14, M.15, S.180, E.181, Q.214 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:H.11, D:G.14, D:M.15, D:E.181 Water bridges: D:D.182 EDO.30: 6 residues within 4Å: Chain B: F.136, W.238 Chain D: N.157, G.234, Q.235, I.236 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:G.234, D:I.236 Water bridges: D:N.157, D:Q.235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arabnejad, H. et al., A robust cosolvent-compatible halohydrin dehalogenase by computational library design. Protein Eng. Des. Sel. (2017)

Release Date

2017-01-11

Peptides

Halohydrin dehalogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Halohydrin dehalogenase