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CRYSTAL STRUCTURE OF HUMAN PIM1 IN COMPLEX WITH IMIDAZOPYRIDAZIN I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XWS PDB ENTRY 1XWS
Crystallization Crystal Properties Matthews coefficient Solvent content 3.7 67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.439 α = 90 b = 98.439 β = 90 c = 80.843 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 CCD MARRESEARCH MIRRORS 2005-09-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 1.9 36.5 97.2 0.08 2.39 3.5 34063 2
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 1.9 2 92 0.59 2.39 2.6
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 1XWS 1.9 85.13 32279 1709 97.1 0.187 0.185 0.195 0.219 0.2279 RANDOM 29.7
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] 0.72 0.36 0.72 -1.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.093 r_dihedral_angle_4_deg 15.599 r_dihedral_angle_3_deg 13.219 r_dihedral_angle_1_deg 9.915 r_scangle_it 4.147 r_scbond_it 2.653 r_mcangle_it 1.952 r_angle_refined_deg 1.599 r_mcbond_it 1.253 r_angle_other_deg 0.895
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.093 r_dihedral_angle_4_deg 15.599 r_dihedral_angle_3_deg 13.219 r_dihedral_angle_1_deg 9.915 r_scangle_it 4.147 r_scbond_it 2.653 r_mcangle_it 1.952 r_angle_refined_deg 1.599 r_mcbond_it 1.253 r_angle_other_deg 0.895 r_symmetry_hbond_refined 0.32 r_xyhbond_nbd_refined 0.293 r_symmetry_vdw_other 0.292 r_nbd_refined 0.207 r_nbtor_refined 0.186 r_nbd_other 0.182 r_chiral_restr 0.103 r_nbtor_other 0.085 r_symmetry_vdw_refined 0.061 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 2209 Nucleic Acid Atoms Solvent Atoms 157 Heterogen Atoms 23
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHASER phasing