4YL1

Crystal Structures of mPGES-1 Inhibitor Complexes


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP294.15100mM Tris HCl pH 8.5 + 35% PEG 1K
Crystal Properties
Matthews coefficientSolvent content
4.1870.55

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.585α = 90
b = 76.585β = 90
c = 123.617γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDRAYONIX MX225HE2009-04-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-ID.91986APS31-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.413299.411.65.651297

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.413048696260199.380.163340.162740.1746RANDOM22.699
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.070.030.07-0.21
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.834
r_sphericity_free24.721
r_dihedral_angle_4_deg16.101
r_dihedral_angle_3_deg12.432
r_sphericity_bonded12.139
r_scbond_it4.746
r_long_range_B_refined4.205
r_dihedral_angle_1_deg3.738
r_rigid_bond_restr2.815
r_mcangle_it2.394
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.834
r_sphericity_free24.721
r_dihedral_angle_4_deg16.101
r_dihedral_angle_3_deg12.432
r_sphericity_bonded12.139
r_scbond_it4.746
r_long_range_B_refined4.205
r_dihedral_angle_1_deg3.738
r_rigid_bond_restr2.815
r_mcangle_it2.394
r_mcbond_it2.122
r_angle_refined_deg0.99
r_chiral_restr0.059
r_bond_refined_d0.005
r_gen_planes_refined0.005
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1174
Nucleic Acid Atoms
Solvent Atoms117
Heterogen Atoms108

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
REFMACphasing
Cootmodel building
MOSFLMdata reduction