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The crystal structure of the glycogen phosphorylase b- 1AB complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HLF PDB ENTRY 1HLF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 6.7 287 BES, EDTA, pH 6.7, SMALL TUBES, temperature 287K
Crystal Properties Matthews coefficient Solvent content 2.49 50.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.712 α = 90 b = 128.712 β = 90 c = 117.442 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 RIGAKU RAXIS IV MSC/Yale double Mirrors 1999-02-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5418
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 2.5 24.69 91.3 0.069 10 3.7 31719 31719 -3 48.1
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) 2.5 2.54 93.7 0.485 3.3 3.6 2352
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 1HLF 2.5 24.69 30080 30080 1613 91.45 0.19242 0.19242 0.18972 0.24276 RANDOM 53.861
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] 0.71 0.71 -1.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.581 r_dihedral_angle_4_deg 18.284 r_dihedral_angle_3_deg 17.733 r_dihedral_angle_1_deg 5.604 r_scangle_it 2.151 r_scbond_it 1.292 r_angle_refined_deg 1.199 r_mcangle_it 1.095 r_mcbond_it 0.613 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.581 r_dihedral_angle_4_deg 18.284 r_dihedral_angle_3_deg 17.733 r_dihedral_angle_1_deg 5.604 r_scangle_it 2.151 r_scbond_it 1.292 r_angle_refined_deg 1.199 r_mcangle_it 1.095 r_mcbond_it 0.613 r_nbtor_refined 0.307 r_symmetry_hbond_refined 0.237 r_nbd_refined 0.201 r_symmetry_vdw_refined 0.139 r_xyhbond_nbd_refined 0.136 r_chiral_restr 0.084 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6553 Nucleic Acid Atoms Solvent Atoms 87 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling