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Crystal structure of EGFR kinase domain G719S mutation in complex with AFN941
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1M14 PDB ENTRY 1M14
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 1.2M KNA TARTRATE, 0.1M HEPES 7.5
Crystal Properties Matthews coefficient Solvent content 3.4 64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.291 α = 90 b = 145.291 β = 90 c = 145.291 γ = 90
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-4 2005-09-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A NSLS X29A
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 2.68 50 98.8 0.05 37.3 6.8 14312 -3
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 2.68 2.89 94.2 0.38 2.8 5.3
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 PDB ENTRY 1M14 2.68 24.91 13557 719 98.8 0.2 0.197 0.1945 0.263 0.2621 RANDOM 61.92
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_2_deg 38.024 r_dihedral_angle_3_deg 20.366 r_dihedral_angle_4_deg 20.039 r_dihedral_angle_1_deg 6.745 r_scangle_it 4.238 r_scbond_it 2.615 r_mcangle_it 2.125 r_angle_refined_deg 1.868 r_mcbond_it 1.126 r_nbtor_refined 0.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.024 r_dihedral_angle_3_deg 20.366 r_dihedral_angle_4_deg 20.039 r_dihedral_angle_1_deg 6.745 r_scangle_it 4.238 r_scbond_it 2.615 r_mcangle_it 2.125 r_angle_refined_deg 1.868 r_mcbond_it 1.126 r_nbtor_refined 0.328 r_nbd_refined 0.257 r_symmetry_vdw_refined 0.231 r_xyhbond_nbd_refined 0.193 r_symmetry_hbond_refined 0.176 r_chiral_restr 0.114 r_bond_refined_d 0.019 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2400 Nucleic Acid Atoms Solvent Atoms 57 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing