2VYA

Crystal Structure of fatty acid amide hydrolase conjugated with the drug-like inhibitor PF-750


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
15.5PEG 400 10% NACL 100MM MES 100MM PH 5.5
Crystal Properties
Matthews coefficientSolvent content
3.160

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 103.69α = 90
b = 103.69β = 90
c = 253.87γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2008-03-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-DAPS23-ID-D

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.754095.60.147340178
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.752.8598.60.562.13

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 REPLACEMENTTHROUGHOUTPDB ENTRY 1MT52.7538.2638162201495.70.1910.1880.239RANDOM31.79
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]
2.531.272.53-3.8
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.667
r_dihedral_angle_3_deg19.637
r_dihedral_angle_4_deg18.847
r_dihedral_angle_1_deg5.97
r_scangle_it1.608
r_angle_refined_deg1.585
r_scbond_it1.032
r_angle_other_deg0.928
r_mcangle_it0.6
r_mcbond_it0.489
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.667
r_dihedral_angle_3_deg19.637
r_dihedral_angle_4_deg18.847
r_dihedral_angle_1_deg5.97
r_scangle_it1.608
r_angle_refined_deg1.585
r_scbond_it1.032
r_angle_other_deg0.928
r_mcangle_it0.6
r_mcbond_it0.489
r_symmetry_vdw_other0.255
r_nbd_refined0.216
r_symmetry_hbond_refined0.193
r_nbd_other0.19
r_symmetry_vdw_refined0.186
r_nbtor_refined0.184
r_xyhbond_nbd_refined0.146
r_nbtor_other0.091
r_chiral_restr0.075
r_bond_refined_d0.012
r_gen_planes_refined0.004
r_bond_other_d0.002
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
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_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms8365
Nucleic Acid Atoms
Solvent Atoms84
Heterogen Atoms43

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing