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Fragment-based discovery of pyrazolopyridones as JAK1 inhibitors with excellent subtype selectivity
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5L3A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 2.1M Na Malonate pH 6.0/6.5, 0.1M glycine pH 8.2
Crystal Properties Matthews coefficient Solvent content 2.77 55.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.411 α = 90 b = 69.669 β = 98.45 c = 50.798 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2015-01-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.97949 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) 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 1 1.99 53.18 99.9 0.181 7.7 3.3 25481
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.99 2.09 0.887 3.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5L3A 1.99 53.18 24165 1203 99.4 0.22599 0.22341 0.27759 0.2478 RANDOM 25.233
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] 0.3 -0.59 -0.09 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.823 r_dihedral_angle_4_deg 22.229 r_dihedral_angle_3_deg 15.152 r_long_range_B_other 13.493 r_long_range_B_refined 13.466 r_scangle_other 11.788 r_scbond_it 9.426 r_scbond_other 9.423 r_mcangle_it 9.35 r_mcangle_other 9.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.823 r_dihedral_angle_4_deg 22.229 r_dihedral_angle_3_deg 15.152 r_long_range_B_other 13.493 r_long_range_B_refined 13.466 r_scangle_other 11.788 r_scbond_it 9.426 r_scbond_other 9.423 r_mcangle_it 9.35 r_mcangle_other 9.35 r_mcbond_it 7.343 r_mcbond_other 7.341 r_dihedral_angle_1_deg 6.209 r_angle_refined_deg 1.377 r_angle_other_deg 1.093 r_chiral_restr 0.081 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2386 Nucleic Acid Atoms Solvent Atoms 120 Heterogen Atoms 17
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing