4P92 image
Deposition Date 2014-04-02
Release Date 2014-07-09
Last Version Date 2023-12-20
Entry Detail
PDB ID:
4P92
Keywords:
Title:
Crystal structure of dienelactone hydrolase C123S mutant at 1.65 A resolution
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.65 Å
R-Value Free:
0.17
R-Value Work:
0.15
R-Value Observed:
0.15
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Carboxymethylenebutenolidase
Gene (Uniprot):clcD
Mutations:C123S
Chain IDs:A
Chain Length:236
Number of Molecules:1
Biological Source:Pseudomonas putida
Ligand Molecules
Primary Citation
Crystallization of dienelactone hydrolase in two space groups: structural changes caused by crystal packing.
Acta Crystallogr.,Sect.F 70 884 889 (2014)
PMID: 25005082 DOI: 10.1107/S2053230X1401108X

Abstact

Dienelactone hydrolase (DLH) is a monomeric protein with a simple α/β-hydrolase fold structure. It readily crystallizes in space group P2₁2₁2₁ from either a phosphate or ammonium sulfate precipitation buffer. Here, the structure of DLH at 1.85 Å resolution crystallized in space group C2 with two molecules in the asymmetric unit is reported. When crystallized in space group P2₁2₁2₁ DLH has either phosphates or sulfates bound to the protein in crucial locations, one of which is located in the active site, preventing substrate/inhibitor binding. Another is located on the surface of the enzyme coordinated by side chains from two different molecules. Crystallization in space group C2 from a sodium citrate buffer results in new crystallographic protein-protein interfaces. The protein backbone is highly similar, but new crystal contacts cause changes in side-chain orientations and in loop positioning. In regions not involved in crystal contacts, there is little change in backbone or side-chain configuration. The flexibility of surface loops and the adaptability of side chains are important factors enabling DLH to adapt and form different crystal lattices.

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