☰ Navigation Tabs
CRYSTAL STRUCTURE OF THE HUMAN PIM1 IN COMPLEX WITH A RUTHENIUM ORGANOMETALLIC LIGAND RU2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XWS PDB ENTRY 1XWS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 0.1 M SUCCINATE PHOSPHATE GLYCINE BUFFER PH 6, 30% PEG1K, 0.5% DMSO, SITTING DROP
Crystal Properties Matthews coefficient Solvent content 3.15 60.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.241 α = 90 b = 98.241 β = 90 c = 80.891 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 IMAGE PLATE MARRESEARCH MIRRORS 2005-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 BESSY 14.2
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 50 97.1 0.04 15.7 5.1 34129 3
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 97 0.24 3.4 2.9
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 40 31653 1709 95.1 0.218 0.216 0.2226 0.265 0.2663 RANDOM 22.54
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] 0.42 0.21 0.42 -0.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.331 r_dihedral_angle_4_deg 15.212 r_dihedral_angle_3_deg 13.005 r_dihedral_angle_1_deg 5.489 r_scangle_it 5.081 r_scbond_it 3.233 r_mcangle_it 2.132 r_mcbond_it 1.27 r_angle_refined_deg 1.106 r_angle_other_deg 0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.331 r_dihedral_angle_4_deg 15.212 r_dihedral_angle_3_deg 13.005 r_dihedral_angle_1_deg 5.489 r_scangle_it 5.081 r_scbond_it 3.233 r_mcangle_it 2.132 r_mcbond_it 1.27 r_angle_refined_deg 1.106 r_angle_other_deg 0.77 r_symmetry_vdw_refined 0.272 r_symmetry_vdw_other 0.264 r_nbd_refined 0.196 r_nbtor_refined 0.178 r_symmetry_hbond_refined 0.175 r_nbd_other 0.172 r_xyhbond_nbd_refined 0.161 r_nbtor_other 0.081 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 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 2214 Nucleic Acid Atoms Solvent Atoms 268 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHASER phasing