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McCP in complex with photocaged nitric oxide, 1.44 s, 9.5 microjoule, SSX
Serial Crystallography (SX)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6HIH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 291 Final concentrations: 20 mg/mL protein, 50 mM HEPES pH 7.5, 34 % (v/v) polyethylene glycol 550, 500 mM MES pH 6.5, 5 mM ZnSO4.
Crystal Properties Matthews coefficient Solvent content 2.95 58.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.183 α = 90 b = 107.183 β = 90 c = 107.183 γ = 90
Symmetry Space Group P 21 3
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 PILATUS3 6M 2021-09-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 1.00 Diamond I24
Serial Crystallography Sample delivery method Diffraction ID Description Sample Delivery Method 1 fixed target
Fixed Target Diffraction ID Description Sample Holding Support Base Motion control Details Sample Solvent 1 Oxford silicon chip Geobrick and Smaract
Measurement Diffraction ID Pulse Duration Pulse Repetition Rate Focal Spot Size Pulse Energy Photons Per Pulse 1 undefined (fs) undefined (KeV)
Data Reduction Diffraction ID Frames Indexed Crystal Hits Frames Indexed Latices Merged 1
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 75.91 100 0.992 0.122 5.8 63 28000
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 2.03 100 0.366 1.042 0.7 48.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2 75.905 28000 1332 100 0.163 0.1617 0.1617 0.1942 0.1942 37.22
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.751 r_dihedral_angle_3_deg 14.138 r_lrange_it 9.724 r_scangle_it 8.889 r_dihedral_angle_2_deg 7.006 r_dihedral_angle_1_deg 6.906 r_scbond_it 5.826 r_mcangle_it 4.487 r_mcbond_it 3.347 r_angle_refined_deg 2.494
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.751 r_dihedral_angle_3_deg 14.138 r_lrange_it 9.724 r_scangle_it 8.889 r_dihedral_angle_2_deg 7.006 r_dihedral_angle_1_deg 6.906 r_scbond_it 5.826 r_mcangle_it 4.487 r_mcbond_it 3.347 r_angle_refined_deg 2.494 r_nbtor_refined 0.317 r_nbd_refined 0.21 r_symmetry_nbd_refined 0.201 r_xyhbond_nbd_refined 0.141 r_chiral_restr 0.122 r_symmetry_xyhbond_nbd_refined 0.121 r_gen_planes_refined 0.011 r_bond_refined_d 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2144 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms 92
Software Software Software Name Purpose DIALS data reduction xia2 data reduction xia2 data scaling REFMAC phasing Coot model building REFMAC refinement