☰ Navigation Tabs
The crystal structure of Glycogen phosphorylase in complex with glucose at 100 K
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WW2 pdb entry 1WW2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 6.7 289 10 MM BES BUFFER, 0.1 MM EDTA,0.02% NAN3, 3 MM DTT, pH 6.7, SMALL TUBES, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.32 47.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.73 α = 90 b = 125.73 β = 90 c = 114.933 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 100 CCD MAR CCD 165 mm 2005-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.8068 EMBL/DESY, HAMBURG X13
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.93 30 99.62 0.07 18.2 4.9 69442 65895 -3 19.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.93 1.96 99.8 0.432 4.2 4.9 3446
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT pdb entry 1WW2 1.93 30 69442 65895 3511 99.62 0.1926 0.1904 0.235 RANDOM 20.205
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] 0.74 0.74 -1.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.878 r_dihedral_angle_4_deg 17.018 r_dihedral_angle_3_deg 12.915 r_dihedral_angle_1_deg 5.299 r_scangle_it 1.521 r_angle_refined_deg 1.103 r_scbond_it 0.935 r_mcangle_it 0.661 r_mcbond_it 0.392 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.878 r_dihedral_angle_4_deg 17.018 r_dihedral_angle_3_deg 12.915 r_dihedral_angle_1_deg 5.299 r_scangle_it 1.521 r_angle_refined_deg 1.103 r_scbond_it 0.935 r_mcangle_it 0.661 r_mcbond_it 0.392 r_nbtor_refined 0.304 r_nbd_refined 0.184 r_symmetry_vdw_refined 0.162 r_symmetry_hbond_refined 0.143 r_xyhbond_nbd_refined 0.11 r_chiral_restr 0.066 r_bond_refined_d 0.007 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6594 Nucleic Acid Atoms Solvent Atoms 960 Heterogen Atoms 84
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling