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Hen lysozyme in triclinic space group at ambient temperature - diffuse scattering dataset
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4LZT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 4.5 295 8 microliter drops with 5-15 mg/mL protein, 224-300 mM NaNO3, 50 mM NaOAc pH 4.5, under paraffin oil
Crystal Properties Matthews coefficient Solvent content 1.86 33.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 27.424 α = 88.657 b = 32.134 β = 108.46 c = 34.513 γ = 111.877
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 PIXEL DECTRIS PILATUS3 6M 100 micron collimator 2017-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 0.9768 CHESS F1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) CC (Half) 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 1.21 32.55 96.1 0.025 0.995 27.4 4.7 30111
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.21 1.23 52.9 0.038 0.994 12.5 1.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4lzt 1.212 32.548 30108 1495 96.103 0.098 0.0968 0.0967 0.1172 0.1171 12.697
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] 0.073 0.049 -0.104 0.307 -0.065 -0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.393 r_sphericity_free 24.725 r_dihedral_angle_4_deg 17.108 r_rigid_bond_restr 14.873 r_dihedral_angle_3_deg 11.282 r_sphericity_bonded 9.773 r_dihedral_angle_1_deg 6.527 r_scangle_it 4.237 r_scbond_it 4.033 r_scangle_other 4.015
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.393 r_sphericity_free 24.725 r_dihedral_angle_4_deg 17.108 r_rigid_bond_restr 14.873 r_dihedral_angle_3_deg 11.282 r_sphericity_bonded 9.773 r_dihedral_angle_1_deg 6.527 r_scangle_it 4.237 r_scbond_it 4.033 r_scangle_other 4.015 r_lrange_it 3.892 r_lrange_other 3.833 r_scbond_other 3.597 r_angle_refined_deg 2.604 r_angle_other_deg 2.576 r_mcangle_other 2.399 r_mcangle_it 2.384 r_mcbond_it 1.762 r_mcbond_other 1.731 r_symmetry_nbd_refined 0.276 r_symmetry_xyhbond_nbd_refined 0.273 r_nbd_refined 0.227 r_symmetry_nbd_other 0.219 r_nbd_other 0.188 r_chiral_restr 0.183 r_nbtor_refined 0.175 r_xyhbond_nbd_refined 0.11 r_symmetry_nbtor_other 0.079 r_bond_other_d 0.035 r_bond_refined_d 0.029 r_gen_planes_other 0.028 r_gen_planes_refined 0.015
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 92 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling Coot model building