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Lysozyme structure from microfluidic-based in situ data collection
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LYZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROFLUIDIC 283.15 50 mM NaOAc/HOAc, pH 3.5
1 M NaCl
35% EG, 12.5% PEG-3350
Crystal Properties Matthews coefficient Solvent content 2.09 41.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.599 α = 90 b = 79.599 β = 90 c = 37.867 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 298.15 PIXEL DECTRIS EIGER X 16M 2020-07-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.97856 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.833 56.28 100 0.111 0.113 0.021 0.99 22.2 27.5 11146 28.68
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.833 1.86 99.4 0.578 0.614 0.2 0.884 2.8 8.5
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1lyz 1.833 56.28 11146 594 99.9 0.1772 0.1762 0.1687 0.196 0.1936 RANDOM 29.18
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] 0.398 0.398 -0.796
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 14.61 t_omega_torsion 3.72 t_angle_deg 0.92 t_bond_d 0.008 t_dihedral_angle_d t_gen_planes t_it t_chiral_improper_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 85 Heterogen Atoms 11
Software Software Software Name Purpose BUSTER refinement XDS data reduction XDS data scaling MOLREP phasing autoPROC data processing