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SSX structure of Lysozyme in flow - metal-kapton microfluidic device
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5MJJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 3.5 275 3:1 v/v precipitant solution:protein solution
precipitant: 50 mM NaAc pH 3.5, 1M NaCl, 35% ethylene glycol, 20% PEG3350
protein buffer: 50 mM NaAc (pH 3.5)
Crystal Properties Matthews coefficient Solvent content 2.07 40.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.3 α = 90 b = 79.3 β = 90 c = 37.7 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 PIXEL DECTRIS EIGER X 4M 2017-11-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID13 0.954 ESRF ID13
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) R Split (All) 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 2.1 56.07 100 0.96 0.1158 5.57 121.1 7013 52.38
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) R Split (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.17 100 0.32 1.13 1.36 87.6
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 5MJJ 2.1 56.07 7013 400 100 0.16832 0.16559 0.1781 0.21572 0.224 RANDOM 49.631
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] 0.22 0.22 -0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.927 r_dihedral_angle_4_deg 25.957 r_dihedral_angle_3_deg 15.884 r_long_range_B_refined 8.082 r_long_range_B_other 8.078 r_dihedral_angle_1_deg 7.302 r_scangle_other 6.469 r_scbond_it 4.422 r_scbond_other 4.418 r_mcangle_other 4.062
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.927 r_dihedral_angle_4_deg 25.957 r_dihedral_angle_3_deg 15.884 r_long_range_B_refined 8.082 r_long_range_B_other 8.078 r_dihedral_angle_1_deg 7.302 r_scangle_other 6.469 r_scbond_it 4.422 r_scbond_other 4.418 r_mcangle_other 4.062 r_mcangle_it 4.059 r_mcbond_it 3.168 r_mcbond_other 3.15 r_angle_refined_deg 1.548 r_angle_other_deg 1.357 r_chiral_restr 0.069 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 32 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement CrystFEL data reduction CrystFEL data scaling MOLREP phasing