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Glycogen Phosphorylase b in complex with GlcCF3U
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GPN PDB entry 2GPN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 6.7 289 T state crystals soaked with 2 mM solution of the inhibitor in the crystallization media for 2hrs, pH 6.7, SMALL TUBES, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.48 50.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.759 α = 90 b = 128.759 β = 90 c = 116.557 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 CCD AGILENT ATLAS CCD 2011-05-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE OXFORD DIFFRACTION ENHANCE ULTRA 1.5419
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 2.65 13.78 95.6 0.099 12.3 3.6 27634 27634 -3
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 2.65 2.79 87.3 0.429 1.9 2.7 3613
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 FOURIER SYNTHESIS THROUGHOUT PDB entry 2GPN 2.65 13.78 27634 26090 1394 94.54 0.16274 0.16274 0.15886 0.1566 0.23511 0.2282 RANDOM 26.503
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] 0.64 0.64 -1.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.477 r_dihedral_angle_4_deg 21.54 r_dihedral_angle_3_deg 18.794 r_dihedral_angle_1_deg 6.404 r_scangle_it 4.21 r_scbond_it 2.428 r_angle_refined_deg 1.61 r_mcangle_it 1.532 r_mcbond_it 0.772 r_chiral_restr 0.113
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.477 r_dihedral_angle_4_deg 21.54 r_dihedral_angle_3_deg 18.794 r_dihedral_angle_1_deg 6.404 r_scangle_it 4.21 r_scbond_it 2.428 r_angle_refined_deg 1.61 r_mcangle_it 1.532 r_mcbond_it 0.772 r_chiral_restr 0.113 r_bond_refined_d 0.016 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6604 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 23
Software Software Software Name Purpose CrysalisPro data collection REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing