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Glycogen Phosphorylase b in complex with indirubin-5'-sulphonate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GFZ PDB ENTRY 1GFZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 6.7 289 BES, EDTA, PH 6.7, SMALL TUBES, TEMPERATURE 289K
Crystal Properties Matthews coefficient Solvent content 2.47 49.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.652 α = 90 b = 128.652 β = 90 c = 116.389 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 IMAGE PLATE MARRESEARCH YALE MIRRORS 2000-09-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
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 2.3 30 95.5 0.096 10.5 6.5 42000 -3 31.6
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 2.3 2.44 75.9 0.439 2.1 2.1
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 FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 1GFZ 2.3 29.34 41950 2099 95.5 0.182 0.182 0.1769 0.214 0.2123 RANDOM 39.3
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] 3.76 3.76 -7.52
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22 c_scangle_it 3.37 c_mcangle_it 2.21 c_scbond_it 2.19 c_mcbond_it 1.33 c_angle_deg 1.2 c_improper_angle_d 0.82 c_bond_d 0.006 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22 c_scangle_it 3.37 c_mcangle_it 2.21 c_scbond_it 2.19 c_mcbond_it 1.33 c_angle_deg 1.2 c_improper_angle_d 0.82 c_bond_d 0.006 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6581 Nucleic Acid Atoms Solvent Atoms 283 Heterogen Atoms 39
Software Software Software Name Purpose CNS refinement DENZO data reduction SCALEPACK data scaling CNS phasing