3QYU image
Deposition Date 2011-03-04
Release Date 2011-08-24
Last Version Date 2023-09-13
Entry Detail
PDB ID:
3QYU
Keywords:
Title:
Crystal structure of human cyclophilin D at 1.54 A resolution at room temperature
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.54 Å
R-Value Free:
0.18
R-Value Work:
0.14
R-Value Observed:
0.14
Space Group:
P 41 21 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Peptidyl-prolyl cis-trans isomerase F
Gene (Uniprot):PPIF
Mutations:K175I
Chain IDs:A
Chain Length:164
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
In-plate protein crystallization, in situ ligand soaking and X-ray diffraction.
Acta Crystallogr.,Sect.D 67 747 755 (2011)
PMID: 21904027 DOI: 10.1107/S0907444911023249

Abstact

X-ray crystallography is now a recognized technique for ligand screening, especially for fragment-based drug design. However, protein crystal handling is still tedious and limits further automation. An alternative method for the solution of crystal structures of proteins in complex with small ligands is proposed. Crystallization drops are directly exposed to an X-ray beam after cocrystallization or soaking with the desired ligands. The use of dedicated plates in connection with an optimal parametrization of the G-rob robot allows efficient data collection. Three proteins currently under study in our laboratory for ligand screening by X-ray crystallography were used as validation test cases. The protein crystals belonged to different space groups, including a challenging monoclinic case. The resulting diffraction data can lead to clear ligand recognition, including indication of alternating conformations. These results demonstrate a possible method for automation of ligand screening by X-ray crystallography.

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