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McCP in complex with photocaged nitric oxide, 1.44 s, 0.19 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 2.97 63.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.321 α = 90 b = 107.321 β = 90 c = 107.321 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 1.75 75.89 100 0.997 0.076 8.2 121.2 41713
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 1.75 1.78 100 0.294 1.27 0.5
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 MIRAS FREE R-VALUE 1.75 75.89 41713 2034 100 0.168 0.1666 0.1723 0.1994 0.2046 34.204
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 15.307 r_dihedral_angle_3_deg 13.148 r_lrange_it 9.676 r_scangle_it 8.754 r_dihedral_angle_2_deg 7.934 r_dihedral_angle_1_deg 6.666 r_scbond_it 5.708 r_mcangle_it 4.548 r_mcbond_it 3.519 r_angle_refined_deg 2.528
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.307 r_dihedral_angle_3_deg 13.148 r_lrange_it 9.676 r_scangle_it 8.754 r_dihedral_angle_2_deg 7.934 r_dihedral_angle_1_deg 6.666 r_scbond_it 5.708 r_mcangle_it 4.548 r_mcbond_it 3.519 r_angle_refined_deg 2.528 r_nbtor_refined 0.316 r_symmetry_nbd_refined 0.216 r_nbd_refined 0.203 r_chiral_restr 0.142 r_xyhbond_nbd_refined 0.106 r_symmetry_xyhbond_nbd_refined 0.043 r_gen_planes_refined 0.014 r_bond_refined_d 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2144 Nucleic Acid Atoms Solvent Atoms 64 Heterogen Atoms 91
Software Software Software Name Purpose DIALS data reduction xia2 data reduction xia2 data scaling MOLREP phasing Coot model building REFMAC refinement