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Lyn Tyrosine Kinase Domain-Dasatinib complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QPD PDB ENTRY 1QPD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 23% polyethylene glycol 3350, 0.1M NaCl, 0.1M Na-Hepes pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.73 54.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 127.378 α = 90 b = 127.378 β = 90 c = 55.619 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.54180
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.6 39.2 10106
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 1QPD 2.6 33.37 9624 476 97.62 0.19935 0.1978 0.2359 0.23111 0.2704 RANDOM 26.737
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] -0.03 -0.02 -0.03 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.809 r_dihedral_angle_3_deg 16.804 r_dihedral_angle_4_deg 12.048 r_dihedral_angle_1_deg 5.645 r_scangle_it 3.165 r_scbond_it 2.122 r_mcangle_it 1.721 r_angle_refined_deg 1.204 r_mcbond_it 0.891 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.809 r_dihedral_angle_3_deg 16.804 r_dihedral_angle_4_deg 12.048 r_dihedral_angle_1_deg 5.645 r_scangle_it 3.165 r_scbond_it 2.122 r_mcangle_it 1.721 r_angle_refined_deg 1.204 r_mcbond_it 0.891 r_nbtor_refined 0.305 r_nbd_refined 0.183 r_symmetry_hbond_refined 0.134 r_xyhbond_nbd_refined 0.113 r_symmetry_vdw_refined 0.109 r_chiral_restr 0.072 r_bond_refined_d 0.007 r_gen_planes_refined 0.002 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2076 Nucleic Acid Atoms Solvent Atoms 38 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement