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Crystal structures of the kinase domain of PKA in complex with ATP-competitive inhibitors
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 273 13-17% PEG 3K-20K, 100 mM MES pH 6.5 or acetate 4.6, 1-15% methanol. Seeded, pH 4.5 - 6.5, vapor diffusion, temperature 273K
Crystal Properties Matthews coefficient Solvent content 2.68 54.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.578 α = 90 b = 95.848 β = 102.53 c = 179.097 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 CCD ADSC QUANTUM 210 un-focused beam 2005-10-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.000 APS 17-ID
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 1.72 42.03 73.7 0.09 3.5 211201 2
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 1.72 1.78 17.3 0.82 2.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2 42.03 163336 8636 93.48 0.24492 0.24311 0.2586 0.2794 0.2938 RANDOM 31.635
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] -2.55 -1.53 3.37 -1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.979 r_dihedral_angle_4_deg 18.431 r_dihedral_angle_3_deg 14.354 r_dihedral_angle_1_deg 5.423 r_scangle_it 1.334 r_angle_refined_deg 1.234 r_scbond_it 0.905 r_angle_other_deg 0.795 r_mcangle_it 0.69 r_mcbond_it 0.454
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.979 r_dihedral_angle_4_deg 18.431 r_dihedral_angle_3_deg 14.354 r_dihedral_angle_1_deg 5.423 r_scangle_it 1.334 r_angle_refined_deg 1.234 r_scbond_it 0.905 r_angle_other_deg 0.795 r_mcangle_it 0.69 r_mcbond_it 0.454 r_symmetry_vdw_other 0.288 r_nbd_refined 0.19 r_nbtor_refined 0.179 r_nbd_other 0.176 r_symmetry_vdw_refined 0.176 r_symmetry_hbond_refined 0.163 r_xyhbond_nbd_refined 0.141 r_mcbond_other 0.112 r_nbtor_other 0.082 r_chiral_restr 0.062 r_xyhbond_nbd_other 0.038 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17910 Nucleic Acid Atoms Solvent Atoms 336 Heterogen Atoms 204
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction JDirector data collection HKL-2000 data reduction AMoRE phasing