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Crystal structure of JAK3 in complex with Compound 10 (FM475)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5LWM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277.15 24-30% PEG 3350, 0.1 M MES, pH 5.5-6.0 and 0.1-0.2 M MgCl2
Crystal Properties Matthews coefficient Solvent content 1.95 36.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.02 α = 91.93 b = 50.424 β = 90.03 c = 61.588 γ = 92.8
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 2016-05-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1 1.7 19.81 97.5 0.086 8.3 3.5 54150
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.79 96 0.614 2 3.6
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5lwm 1.7 19.81 51642 2503 97.45 0.20863 0.20688 0.216 0.2438 0.25 RANDOM 24.922
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] -1.23 0.17 -0.09 1.42 0.4 -0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.561 r_dihedral_angle_4_deg 15.927 r_dihedral_angle_3_deg 13.399 r_dihedral_angle_1_deg 6.17 r_long_range_B_refined 5.34 r_long_range_B_other 5.34 r_mcangle_it 1.919 r_mcangle_other 1.919 r_scangle_other 1.847 r_angle_refined_deg 1.658
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.561 r_dihedral_angle_4_deg 15.927 r_dihedral_angle_3_deg 13.399 r_dihedral_angle_1_deg 6.17 r_long_range_B_refined 5.34 r_long_range_B_other 5.34 r_mcangle_it 1.919 r_mcangle_other 1.919 r_scangle_other 1.847 r_angle_refined_deg 1.658 r_angle_other_deg 1.197 r_scbond_it 1.127 r_scbond_other 1.127 r_mcbond_other 1.081 r_mcbond_it 1.08 r_chiral_restr 0.101 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_bond_other_d 0.005 r_gen_planes_other 0.004 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4634 Nucleic Acid Atoms Solvent Atoms 321 Heterogen Atoms 140
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing