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Glycogen Phosphorylase b in complex with GlcIU
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 2.46 50.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.507 α = 90 b = 128.507 β = 90 c = 116.334 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 2011-02-16 M Crysallis
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 2.6 13.72 98.8 0.102 13.9 6 30028 30028 -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 2.6 2.74 97.3 0.455 2.8 4 4250
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 2.6 13.55 30028 28571 1524 99.36 0.16125 0.16125 0.15799 0.1557 0.22085 0.2136 RANDOM 25.435
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] 0.01 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.885 r_dihedral_angle_4_deg 21.666 r_dihedral_angle_3_deg 18.999 r_dihedral_angle_1_deg 6.675 r_scangle_it 4.664 r_scbond_it 2.758 r_mcangle_it 1.722 r_angle_refined_deg 1.707 r_mcbond_it 0.863 r_chiral_restr 0.121
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.885 r_dihedral_angle_4_deg 21.666 r_dihedral_angle_3_deg 18.999 r_dihedral_angle_1_deg 6.675 r_scangle_it 4.664 r_scbond_it 2.758 r_mcangle_it 1.722 r_angle_refined_deg 1.707 r_mcbond_it 0.863 r_chiral_restr 0.121 r_bond_refined_d 0.018 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6577 Nucleic Acid Atoms Solvent Atoms 161 Heterogen Atoms 20
Software Software Software Name Purpose CrysalisPro data collection REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing