5OMG

p38alpha in complex with pyrazolobenzothiazine inhibitor COXP4M12


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.15
Details 100 mM MES pH 5.6-6.2, 20-30 % PEG4000, 50 mM BOG

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.82 α = 90
b = 74.96 β = 90
c = 78.74 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 90
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2015-05-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA 1.00009 SLS X10SA

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2 50 100.0 -- -- -- 13.1 -- 26010 -- -- --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.0 2.05 100.0 -- -- 3.12 13.5 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
-- 2.0 42.14 -- -- -- 26010 1369 99.98 -- 0.18562 0.18241 0.24519 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.0 2.052 -- 100 1905 0.267 0.323 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.297
Anisotropic B[1][1] 0.46
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.85
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.39
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 16.955
r_angle_refined_deg 1.885
r_mcangle_other 4.598
r_angle_other_deg 1.072
r_scbond_other 3.887
r_bond_refined_d 0.019
r_dihedral_angle_3_deg 15.522
r_gen_planes_other 0.002
r_mcbond_it 3.331
r_dihedral_angle_2_deg 36.105
r_scbond_it 3.889
r_scangle_other 5.903
r_dihedral_angle_1_deg 5.526
r_gen_planes_refined 0.01
r_long_range_B_refined 8.329
r_mcbond_other 3.332
r_chiral_restr 0.112
r_bond_other_d 0.003
r_long_range_B_other 8.334
r_mcangle_it 4.599
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2688
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 172

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0103
XDS data reduction
XSCALE data scaling
PHASER phasing