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The crystal structure of human abl1 kinase domain in complex with DCC-2036
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other Abl kinase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.2 290 32% PEG 3000, 100MM TRIS PH 8.2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K
Crystal Properties Matthews coefficient Solvent content 2.11 41.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.26 α = 90 b = 59.7 β = 108.71 c = 79.43 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 2006-06-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.0000 ALS 5.0.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 75 97.4 0.114 13.1 32265 31426 16
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.2 84.1 2.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT Abl kinase 2.1 57.08 32265 32074 1540 0.216 0.216 0.213 0.272 0.2944 RANDOM 26.43
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] 1.32 0.85 -1 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.285 r_dihedral_angle_3_deg 12.154 r_dihedral_angle_4_deg 12.014 r_dihedral_angle_1_deg 4.599 r_scangle_it 1.794 r_angle_refined_deg 1.438 r_scbond_it 1.087 r_mcangle_it 0.9 r_angle_other_deg 0.857 r_mcbond_it 0.482
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.285 r_dihedral_angle_3_deg 12.154 r_dihedral_angle_4_deg 12.014 r_dihedral_angle_1_deg 4.599 r_scangle_it 1.794 r_angle_refined_deg 1.438 r_scbond_it 1.087 r_mcangle_it 0.9 r_angle_other_deg 0.857 r_mcbond_it 0.482 r_chiral_restr 0.077 r_mcbond_other 0.067 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4329 Nucleic Acid Atoms Solvent Atoms 400 Heterogen Atoms 84
Software Software Software Name Purpose BOS data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling