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Crystal structure of EGFR kinase domain L858R mutation in complex with Iressa
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1M17 PDB ENTRY 1M17
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 40% PEG400, 0.15M NACL, 0.1M HEPES PH7.5, pH 7.50
Crystal Properties Matthews coefficient Solvent content 3.4 64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.929 α = 90 b = 145.929 β = 90 c = 145.929 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 315 MIRRORS 2006-07-21 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 2.8 50 93.9 0.06 22.5 4.9 12826 -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 2.8 3.02 85.3 0.33 3.3 3.5
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 1M17 2.8 25 11513 597 93.6 0.205 0.202 0.2081 0.255 0.2626 RANDOM 57.75
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 40.057 r_dihedral_angle_4_deg 20.412 r_dihedral_angle_3_deg 18.858 r_dihedral_angle_1_deg 5.347 r_scangle_it 4.03 r_scbond_it 2.761 r_mcangle_it 1.982 r_angle_refined_deg 1.631 r_mcbond_it 1.288 r_nbtor_refined 0.324
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.057 r_dihedral_angle_4_deg 20.412 r_dihedral_angle_3_deg 18.858 r_dihedral_angle_1_deg 5.347 r_scangle_it 4.03 r_scbond_it 2.761 r_mcangle_it 1.982 r_angle_refined_deg 1.631 r_mcbond_it 1.288 r_nbtor_refined 0.324 r_symmetry_vdw_refined 0.304 r_nbd_refined 0.245 r_xyhbond_nbd_refined 0.172 r_symmetry_hbond_refined 0.117 r_chiral_restr 0.098 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 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 2415 Nucleic Acid Atoms Solvent Atoms 65 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing