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Glycogen synthase kinase-3 beta in complex with bis-(indole)maleimide pyridinophane inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H8F previously derived model (originally from 1H8F)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 9 PEG2000, BICINE pH9.0
Crystal Properties Matthews coefficient Solvent content 3.44 64.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.472 α = 90 b = 117.329 β = 103.22 c = 69.461 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 MAR CCD 165 mm Dynamically blendable mirror 2005-05-31 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) 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 2.8 67.6 95.1 0.115 0.115 5.4 3.7 25427 25427 82.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.8 3.02 79.8 0.0854 0.0854 1.3 3.4 4465
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT previously derived model (originally from 1H8F) 2.8 67.57 25427 25427 1032 94.76 0.24794 0.24794 0.24595 0.2323 0.29483 0.2566 RANDOM 61.55
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] -2.31 -0.94 6.45 -4.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.17 r_dihedral_angle_3_deg 16.102 r_dihedral_angle_4_deg 12.358 r_dihedral_angle_1_deg 5.404 r_scangle_it 3.245 r_scbond_it 2.145 r_mcangle_it 1.67 r_mcbond_it 1.32 r_angle_refined_deg 1.033 r_angle_other_deg 0.742
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.17 r_dihedral_angle_3_deg 16.102 r_dihedral_angle_4_deg 12.358 r_dihedral_angle_1_deg 5.404 r_scangle_it 3.245 r_scbond_it 2.145 r_mcangle_it 1.67 r_mcbond_it 1.32 r_angle_refined_deg 1.033 r_angle_other_deg 0.742 r_nbd_refined 0.188 r_mcbond_other 0.184 r_nbtor_refined 0.173 r_symmetry_vdw_other 0.168 r_nbd_other 0.166 r_xyhbond_nbd_refined 0.118 r_nbtor_other 0.081 r_symmetry_vdw_refined 0.075 r_symmetry_hbond_refined 0.061 r_chiral_restr 0.06 r_bond_refined_d 0.007 r_gen_planes_refined 0.002 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5584 Nucleic Acid Atoms Solvent Atoms 15 Heterogen Atoms 82
Software Software Software Name Purpose REFMAC refinement MAR345 data collection MOSFLM data reduction SCALA data scaling CCP4 phasing