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Human PIM1 bound to OX0999
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2C3I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 0.2M NaNO3, 0.1M bis-tris propane pH 8.5, 20% PEG 3350, 10% ethylene glycol
Crystal Properties Matthews coefficient Solvent content 2.99 58.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.889 α = 90 b = 97.889 β = 90 c = 80.37 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 PIXEL DECTRIS PILATUS 2M 2013-03-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.96860 Diamond I24
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 2.1 84.77 100 0.12 8.8 6.1 25672
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 2.1 2.21 100 0.67 2.3 5.4
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 2C3I 2.1 84.77 24330 1307 99.99 0.17675 0.17546 0.1832 0.20081 0.2057 RANDOM 41.469
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] 1.04 0.52 1.04 -3.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.919 r_dihedral_angle_4_deg 15.167 r_dihedral_angle_3_deg 11.704 r_dihedral_angle_1_deg 5.809 r_long_range_B_refined 4.866 r_long_range_B_other 4.865 r_mcangle_it 2.072 r_mcangle_other 2.071 r_scangle_other 2.039 r_angle_refined_deg 1.321
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.919 r_dihedral_angle_4_deg 15.167 r_dihedral_angle_3_deg 11.704 r_dihedral_angle_1_deg 5.809 r_long_range_B_refined 4.866 r_long_range_B_other 4.865 r_mcangle_it 2.072 r_mcangle_other 2.071 r_scangle_other 2.039 r_angle_refined_deg 1.321 r_mcbond_it 1.209 r_mcbond_other 1.19 r_scbond_it 1.18 r_scbond_other 1.18 r_angle_other_deg 0.915 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2246 Nucleic Acid Atoms Solvent Atoms 134 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing