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Glycogen phosphorylase b in complex with GlcClU
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 2.45 49.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.234 α = 90 b = 128.234 β = 90 c = 116.354 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 2011-04-07 M Chryssalis
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 2.15 13.94 94.6 0.097 9.9 3 50243 50243 -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 2.15 2.27 89.1 0.525 2.4 2.4 6774
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT PDB entry 2GPN 2.15 13.91 50243 47510 2545 94.02 0.18007 0.18007 0.17728 0.23267 0.1939 RANDOM 30.595
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] 0.42 0.42 -0.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.893 r_dihedral_angle_4_deg 20.6 r_dihedral_angle_3_deg 18.18 r_dihedral_angle_1_deg 6.779 r_scangle_it 5.615 r_scbond_it 3.431 r_mcangle_it 2.08 r_angle_refined_deg 1.9 r_mcbond_it 1.095 r_chiral_restr 0.138
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.893 r_dihedral_angle_4_deg 20.6 r_dihedral_angle_3_deg 18.18 r_dihedral_angle_1_deg 6.779 r_scangle_it 5.615 r_scbond_it 3.431 r_mcangle_it 2.08 r_angle_refined_deg 1.9 r_mcbond_it 1.095 r_chiral_restr 0.138 r_bond_refined_d 0.021 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6604 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 20
Software Software Software Name Purpose CrysalisPro data collection REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing