☰ Navigation Tabs
Glycogen synthase in complex with UDP and glucosamine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3NB0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 273 0.1 M Bis-Tris pH 6.1, 22 % Peg 300
Crystal Properties Matthews coefficient Solvent content 3.11 64.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 193.044 α = 90 b = 204.698 β = 90 c = 205.888 γ = 90
Symmetry Space Group I 2 2 2
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 PILATUS3 S 6M 2016-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.9794 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.98 145.5 95.2 14.7 4.3 98100
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 3NB0 2.98 30 78100 4474 99.6 0.19825 0.1957 0.1968 0.24407 0.2437 RANDOM 87.609
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 1.97 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.121 r_dihedral_angle_3_deg 16.122 r_dihedral_angle_4_deg 14.937 r_dihedral_angle_1_deg 6.296 r_long_range_B_refined 5.28 r_long_range_B_other 5.28 r_mcangle_it 2.788 r_mcangle_other 2.788 r_scangle_other 2.589 r_mcbond_it 1.598
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.121 r_dihedral_angle_3_deg 16.122 r_dihedral_angle_4_deg 14.937 r_dihedral_angle_1_deg 6.296 r_long_range_B_refined 5.28 r_long_range_B_other 5.28 r_mcangle_it 2.788 r_mcangle_other 2.788 r_scangle_other 2.589 r_mcbond_it 1.598 r_mcbond_other 1.596 r_scbond_it 1.459 r_scbond_other 1.459 r_angle_refined_deg 1.401 r_angle_other_deg 0.961 r_chiral_restr 0.076 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 20209 Nucleic Acid Atoms Solvent Atoms 1 Heterogen Atoms 176
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling MOLREP phasing