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Crystal Structure of Protein Kinase A in Complex with Azepane Derivative 1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.4 278 LiCl, MesBisTris, methanol, MEGA-8, pH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 278K
Crystal Properties Matthews coefficient Solvent content 2.63 53.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.24 α = 90 b = 76.32 β = 90 c = 79.74 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 278 AREA DETECTOR SIEMENS X1000 GRAPHITE MONOCHROMATOR 2001-06-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.49 20.93 91.1 14845 14845
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.5 2.57 54
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.49 20.94 14088 14088 757 91.06 0.202 0.202 0.199 0.257 FROM STARTING MODEL 18.843
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.346 r_scangle_it 2.638 r_scbond_it 1.569 r_angle_refined_deg 1.477 r_mcangle_it 1.182 r_angle_other_deg 0.829 r_mcbond_it 0.632 r_symmetry_vdw_other 0.295 r_nbd_other 0.228 r_nbd_refined 0.213
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.346 r_scangle_it 2.638 r_scbond_it 1.569 r_angle_refined_deg 1.477 r_mcangle_it 1.182 r_angle_other_deg 0.829 r_mcbond_it 0.632 r_symmetry_vdw_other 0.295 r_nbd_other 0.228 r_nbd_refined 0.213 r_metal_ion_refined 0.21 r_symmetry_vdw_refined 0.176 r_xyhbond_nbd_refined 0.171 r_symmetry_hbond_refined 0.15 r_nbtor_other 0.087 r_chiral_restr 0.079 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2931 Nucleic Acid Atoms Solvent Atoms 98 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement ASTRO data reduction SAINT data scaling AMoRE phasing