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Crystal structure of EGFR kinase domain 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 1.2M KNA 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 = 145.14 α = 90 b = 145.14 β = 90 c = 145.14 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 2005-12-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-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 3.42 50 99.7 0.12 19.1 7.2 6996 -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 3.42 3.68 100 0.4 5.8 7.4
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 3.42 24.89 6280 689 99.7 0.216 0.211 0.1886 0.26 0.231 RANDOM 49.42
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 39.633 r_dihedral_angle_3_deg 21.324 r_dihedral_angle_4_deg 15.366 r_dihedral_angle_1_deg 6.692 r_scangle_it 3.819 r_scbond_it 2.119 r_mcangle_it 1.981 r_angle_refined_deg 1.811 r_mcbond_it 1.056 r_nbtor_refined 0.338
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.633 r_dihedral_angle_3_deg 21.324 r_dihedral_angle_4_deg 15.366 r_dihedral_angle_1_deg 6.692 r_scangle_it 3.819 r_scbond_it 2.119 r_mcangle_it 1.981 r_angle_refined_deg 1.811 r_mcbond_it 1.056 r_nbtor_refined 0.338 r_symmetry_hbond_refined 0.312 r_nbd_refined 0.283 r_symmetry_vdw_refined 0.242 r_xyhbond_nbd_refined 0.185 r_chiral_restr 0.106 r_bond_refined_d 0.022 r_gen_planes_refined 0.009 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 2396 Nucleic Acid Atoms Solvent Atoms 19 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing