3NNV

Crystal structure of P38 alpha in complex with DP437


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP729020% PEG 3350, 200MM LITIUM CITRATE, SOAKED WITH COMPOUND, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K, pH 7.0
Crystal Properties
Matthews coefficientSolvent content
3.0559.61

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 45.561α = 90
b = 86.334β = 90
c = 125.774γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCD2005-03-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-BMAPS19-BM

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
12.15099.90.0869.972972229722
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.12.151007

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2.120296422964215040.1880.1880.1860.235RANDOM43.7
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]
0.35-0.750.4
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.724
r_scangle_it4.037
r_scbond_it2.524
r_mcangle_it1.801
r_angle_refined_deg1.5
r_mcbond_it0.964
r_symmetry_vdw_refined0.213
r_nbd_refined0.21
r_symmetry_hbond_refined0.189
r_xyhbond_nbd_refined0.184
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.724
r_scangle_it4.037
r_scbond_it2.524
r_mcangle_it1.801
r_angle_refined_deg1.5
r_mcbond_it0.964
r_symmetry_vdw_refined0.213
r_nbd_refined0.21
r_symmetry_hbond_refined0.189
r_xyhbond_nbd_refined0.184
r_chiral_restr0.093
r_bond_refined_d0.015
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_gen_planes_other
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2804
Nucleic Acid Atoms
Solvent Atoms272
Heterogen Atoms31

Software

Software
Software NamePurpose
CrystalCleardata collection
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling