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Crystal structure of bruton's tyrosine kinase mutant V555R in complex with dasatinib
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3OCS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.4 289 100 MM MES, PH 5.4, 20% PEG 3500, 200 MM NACL, 3% POLYPROPYLENE GLYCOL P 400, VAPOR DIFFUSION, TEMPERATURE 289K, VAPOR DIFFUSION, SITTING DROP
Crystal Properties Matthews coefficient Solvent content 2.18 43.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.101 α = 90 b = 42.944 β = 112.58 c = 64.542 γ = 90
Symmetry Space Group P 1 21 1
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 2008-02-08 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.98 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 1.76 59.55 81.5 0.077 10.6 3.2 22490
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) 1.76 1.82 51 0.364 2.2
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 3OCS 1.95 59.55 18379 973 0.199 0.196 0.1993 0.251 0.2552 RANDOM 27.924
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] 2.4 2.86 -0.99 0.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.501 r_dihedral_angle_4_deg 16.764 r_dihedral_angle_3_deg 14.96 r_dihedral_angle_1_deg 6.443 r_scangle_it 3.649 r_scbond_it 2.368 r_angle_refined_deg 1.543 r_mcangle_it 1.401 r_mcbond_it 0.742 r_chiral_restr 0.102
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.501 r_dihedral_angle_4_deg 16.764 r_dihedral_angle_3_deg 14.96 r_dihedral_angle_1_deg 6.443 r_scangle_it 3.649 r_scbond_it 2.368 r_angle_refined_deg 1.543 r_mcangle_it 1.401 r_mcbond_it 0.742 r_chiral_restr 0.102 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 1992 Nucleic Acid Atoms Solvent Atoms 101 Heterogen Atoms 33
Software Software Software Name Purpose MOLREP phasing REFMAC refinement