SMTL ID : 5mxp.1

Haloalkane dehalogenase DmxA from Marinobacter sp. ELB17 possessing a unique catalytic residue

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 8 residues within 4Å: Chain A: Q.40, D.105, W.106, M.131, F.149, F.169, H.273, Y.274 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.169 ACT.2: 8 residues within 4Å: Chain A: T.265, A.266, F.267 Chain B: T.265, A.266, F.267, Q.289 Ligands: NA.10 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:F.267 Water bridges: A:T.265, A:T.265, B:F.267, B:F.267, B:F.267 ACT.5: 7 residues within 4Å: Chain B: D.105, W.106, M.131, F.149, F.169, L.210, H.273 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.105

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

NA.3: 5 residues within 4Å: Chain A: L.19, G.20, S.21, P.74, Y.86 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.21, A:Y.86 NA.4: 3 residues within 4Å: Chain A: D.142, F.246, P.249 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.142 NA.6: 2 residues within 4Å: Chain B: D.142, T.145 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.145 NA.7: 4 residues within 4Å: Chain B: R.257, Q.258, L.260, P.261 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.260 NA.8: 4 residues within 4Å: Chain B: E.92, Y.114, H.118, R.121 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.114, B:Y.114, B:R.121 NA.9: 4 residues within 4Å: Chain A: Q.285, Q.289 Chain B: R.257, L.263 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.285, A:Q.289 Water bridges: B:L.263 NA.10: 3 residues within 4Å: Chain A: A.286 Chain B: T.265 Ligands: ACT.2 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Water bridges: A:A.286, B:F.267 Hydrogen bonds: B:T.265 NA.11: 5 residues within 4Å: Chain B: L.19, G.20, S.21, P.74, Y.86 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.21 Water bridges: B:Y.86

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chrast, L. et al., Deciphering the Structural Basis of High Thermostability of Dehalogenase from Psychrophilic BacteriumMarinobactersp. ELB17. Microorganisms (2019)

Release Date

2018-07-25

Peptides

Alpha/beta hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Alpha/beta hydrolase