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Crystal structure of EGFR kinase domain T790M mutation in complex with AEE788
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2JIT PDB ENTRY 2JIT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1M HEPES 7.5, 0.3M NACL, 21% PEG6K, 5MM TCEP
Crystal Properties Matthews coefficient Solvent content 2.4 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.405 α = 90 b = 88.643 β = 90 c = 164.867 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 CCD MIRRORS 2007-03-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C APS 24-ID-C
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 3.05 50 99.8 0.1 17.5 5.8 14268 -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 3.05 3.29 99.4 0.39 4 4.6
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 2JIT 3.05 24.12 13366 716 99.8 0.214 0.211 0.2063 0.277 0.2742 RANDOM 62.74
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] 0.09 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.566 r_dihedral_angle_3_deg 19.449 r_dihedral_angle_4_deg 16.542 r_dihedral_angle_1_deg 5.391 r_scangle_it 2.909 r_scbond_it 1.654 r_mcangle_it 1.484 r_angle_refined_deg 1.367 r_mcbond_it 0.785 r_nbtor_refined 0.327
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.566 r_dihedral_angle_3_deg 19.449 r_dihedral_angle_4_deg 16.542 r_dihedral_angle_1_deg 5.391 r_scangle_it 2.909 r_scbond_it 1.654 r_mcangle_it 1.484 r_angle_refined_deg 1.367 r_mcbond_it 0.785 r_nbtor_refined 0.327 r_nbd_refined 0.258 r_symmetry_vdw_refined 0.212 r_symmetry_hbond_refined 0.205 r_xyhbond_nbd_refined 0.171 r_chiral_restr 0.083 r_bond_refined_d 0.014 r_gen_planes_refined 0.004 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 4787 Nucleic Acid Atoms Solvent Atoms 60 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing