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Crystal structure of EGFR kinase domain in complex with AEE788
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 1.2M NAK TARTRATE, 0.1M HEPES 7.5, pH 7.50
Crystal Properties Matthews coefficient Solvent content 3.4 64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.309 α = 90 b = 145.309 β = 90 c = 145.309 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 CCD MIRRORS 2006-08-21 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 3.1 50 96.7 0.07 22.5 6.4 9135 -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 3.1 3.34 83.8 0.38 3 3.2
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 3.1 25 8636 467 96.7 0.202 0.199 0.1984 0.249 0.2149 RANDOM 52.91
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 41.485 r_dihedral_angle_3_deg 18.773 r_dihedral_angle_4_deg 15.653 r_mcangle_it 5.087 r_scangle_it 5.067 r_scbond_it 3.19 r_mcbond_it 2.729 r_dihedral_angle_1_deg 2.367 r_angle_refined_deg 1.57 r_symmetry_hbond_refined 0.431
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.485 r_dihedral_angle_3_deg 18.773 r_dihedral_angle_4_deg 15.653 r_mcangle_it 5.087 r_scangle_it 5.067 r_scbond_it 3.19 r_mcbond_it 2.729 r_dihedral_angle_1_deg 2.367 r_angle_refined_deg 1.57 r_symmetry_hbond_refined 0.431 r_nbtor_refined 0.345 r_nbd_refined 0.308 r_symmetry_vdw_refined 0.286 r_xyhbond_nbd_refined 0.242 r_chiral_restr 0.121 r_bond_refined_d 0.01 r_gen_planes_refined 0.01 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 2433 Nucleic Acid Atoms Solvent Atoms 66 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing