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ErbB4 kinase domain complexed with a thienopyrimidine inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FGK pdb entry 1FGK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 50mM Sodium cacodylate, 100mM amonium acetate, 10mM magnesium acetate, 30% PEG8000, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.28 46.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.872 α = 90 b = 63.872 β = 90 c = 163.607 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 93 CCD MAR CCD 165 mm monochromoter 2002-04-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-BM 1.0 APS 17-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.4 63.89 94.4 0.088 0.088 27 4.3 22901 22901 2 2 59
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 2.4 2.463 47 0.53 2 2 864
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) 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 1FGK 2.4 63.89 2 2 24180 22901 1234 94.42 0.20857 0.20578 0.1998 0.26344 0.255 RANDOM 58.882
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] 1.56 1.56 -3.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.415 r_dihedral_angle_4_deg 17.175 r_dihedral_angle_3_deg 14.297 r_dihedral_angle_1_deg 5.375 r_scangle_it 1.565 r_angle_refined_deg 1.175 r_scbond_it 0.961 r_mcangle_it 0.66 r_mcbond_it 0.387 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.415 r_dihedral_angle_4_deg 17.175 r_dihedral_angle_3_deg 14.297 r_dihedral_angle_1_deg 5.375 r_scangle_it 1.565 r_angle_refined_deg 1.175 r_scbond_it 0.961 r_mcangle_it 0.66 r_mcbond_it 0.387 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.206 r_nbd_refined 0.194 r_symmetry_hbond_refined 0.134 r_xyhbond_nbd_refined 0.124 r_chiral_restr 0.076 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4574 Nucleic Acid Atoms Solvent Atoms 137 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing