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Crystal structure of PYK2 complexed with PF-2318841
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION VAPOR DIFFUSION
Crystal Properties Matthews coefficient Solvent content 3.33 63.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.824 α = 90 b = 106.824 β = 90 c = 75.185 γ = 90
Symmetry Space Group P 4 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV++ M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.542
Data Collection Overall ID # 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 1 2.7 30 97.7 0.071 0.071 7.2 12183 12183
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.7 2.8 98.8 0.764 0.764 2.9 6.8 1198
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2.7 30 12183 11596 587 97.86 0.25068 0.25068 0.24664 0.2377 0.3283 0.3194 RANDOM 61.703
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] -1.13 -1.13 2.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 11.769 r_scangle_it 5.696 r_scbond_it 3.576 r_angle_refined_deg 2.973 r_mcangle_it 2.675 r_mcbond_it 1.448 r_symmetry_hbond_refined 0.431 r_symmetry_vdw_refined 0.329 r_nbd_refined 0.328 r_xyhbond_nbd_refined 0.246
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 11.769 r_scangle_it 5.696 r_scbond_it 3.576 r_angle_refined_deg 2.973 r_mcangle_it 2.675 r_mcbond_it 1.448 r_symmetry_hbond_refined 0.431 r_symmetry_vdw_refined 0.329 r_nbd_refined 0.328 r_xyhbond_nbd_refined 0.246 r_chiral_restr 0.18 r_bond_refined_d 0.032 r_gen_planes_refined 0.012 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2114 Nucleic Acid Atoms Solvent Atoms 12 Heterogen Atoms 42
Software Software Software Name Purpose HKL-2000 data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling