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Crystal structure of GSK-3 beta in complex with NMS-869553A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q3D PDB entry 1Q3D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 20% w/v PEG 3350, 100 mM Hepes pH 8.0, 20 mM MgCl2, 10% v/v Glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.36 63.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.599 α = 90 b = 85.81 β = 90 c = 178.043 γ = 90
Symmetry Space Group P 21 21 21
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 2008-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 1.0090 ESRF ID23-1
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 2.2 30 90.5 0.082 12 58862
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) 2.2 2.28 47.2 0.446 3016
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 1Q3D 2.2 30 58807 2973 90.46 0.215 0.214 0.2104 0.246 0.2431 RANDOM 48.234
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] -0.22 2.59 -2.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.551 r_dihedral_angle_4_deg 20.421 r_dihedral_angle_3_deg 16.036 r_dihedral_angle_1_deg 6.831 r_scangle_it 4.221 r_scbond_it 2.721 r_mcangle_it 1.872 r_angle_refined_deg 1.625 r_mcbond_it 1.101 r_symmetry_hbond_refined 0.576
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.551 r_dihedral_angle_4_deg 20.421 r_dihedral_angle_3_deg 16.036 r_dihedral_angle_1_deg 6.831 r_scangle_it 4.221 r_scbond_it 2.721 r_mcangle_it 1.872 r_angle_refined_deg 1.625 r_mcbond_it 1.101 r_symmetry_hbond_refined 0.576 r_nbtor_refined 0.312 r_symmetry_vdw_refined 0.219 r_nbd_refined 0.209 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.108 r_bond_refined_d 0.018 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5390 Nucleic Acid Atoms Solvent Atoms 214 Heterogen Atoms 40
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MxCuBE data collection