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JAK3 kinase domain in complex with 1-[(3S)-1-isobutylsulfonyl-3-piperidyl]-3-(5H-pyrrolo[2,3-b]pyrazin-2-yl)urea
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4HVD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 30% PEG 3350, 0.1M MES, 0.2M MgCl, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.24 45.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.921 α = 90 b = 75.703 β = 90 c = 89.729 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315r M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97946 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1 2.4 44.86 92.34 0.078 11.9 5.1 11477 37.34
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.5 52.4 0.355 1.82 1.7 740
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 FOURIER SYNTHESIS THROUGHOUT 4HVD 2.4 44.86 11477 571 92.34 0.21009 0.20696 0.2107 0.27256 0.2698 RANDOM 32.143
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] -0.55 -0.02 0.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.765 r_dihedral_angle_4_deg 20.941 r_dihedral_angle_3_deg 15.883 r_dihedral_angle_1_deg 5.87 r_long_range_B_refined 4.961 r_long_range_B_other 4.941 r_scangle_other 3.07 r_mcangle_it 2.871 r_mcangle_other 2.871 r_scbond_other 1.808
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.765 r_dihedral_angle_4_deg 20.941 r_dihedral_angle_3_deg 15.883 r_dihedral_angle_1_deg 5.87 r_long_range_B_refined 4.961 r_long_range_B_other 4.941 r_scangle_other 3.07 r_mcangle_it 2.871 r_mcangle_other 2.871 r_scbond_other 1.808 r_scbond_it 1.801 r_mcbond_it 1.658 r_mcbond_other 1.655 r_angle_refined_deg 1.409 r_angle_other_deg 0.794 r_chiral_restr 0.077 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 2221 Nucleic Acid Atoms Solvent Atoms 82 Heterogen Atoms 26
Software Software Software Name Purpose ADSC data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing