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Crystal structure of JAK3 in complex with FM587 (compound 9a)
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 5.5 277.15 25% PEG 3350, 0.1-0.2 M MgCl2 and 0.1 M MES, pH 5.5
Crystal Properties Matthews coefficient Solvent content 2.48 50.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.469 α = 90 b = 112.883 β = 97.21 c = 102.897 γ = 90
Symmetry Space Group P 1 21 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 EIGER2 X 16M 2018-04-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.99986 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.4 49.39 99.2 0.126 0.162 0.075 0.994 6.6 4.6 50511
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.53 98.1 0.629 0.837 0.398 0.791 1.8 4.3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5lwm 2.4 49.39 47992 2497 99.11 0.2143 0.2122 0.2158 0.2557 0.2552 RANDOM 39.666
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] -0.86 0.33 -0.09 0.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.727 r_dihedral_angle_1_deg 19.524 r_dihedral_angle_4_deg 18.092 r_dihedral_angle_3_deg 14.663 r_angle_refined_deg 1.082 r_angle_other_deg 0.856 r_chiral_restr 0.06 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.727 r_dihedral_angle_1_deg 19.524 r_dihedral_angle_4_deg 18.092 r_dihedral_angle_3_deg 14.663 r_angle_refined_deg 1.082 r_angle_other_deg 0.856 r_chiral_restr 0.06 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8919 Nucleic Acid Atoms Solvent Atoms 337 Heterogen Atoms 212
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction PHASER phasing