☰ Navigation Tabs
Nitrite-bound copper nitrite reductase from Achromobacter cycloclastes determined by serial femtosecond rotation crystallography
Serial Crystallography (SX)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293.15 1.2 M ammonium sulphate, 100 mM citrate buffer, pH 5.0
Crystal Properties Matthews coefficient Solvent content 1.96 37.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.92 α = 90 b = 94.92 β = 90 c = 94.92 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 100 CCD RAYONIX MX225-HS 2017-10-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 FREE ELECTRON LASER SACLA BEAMLINE BL2 1.242 SACLA BL2
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 Mounted Hampton Cryo Loops 0.7 - 1.0 mm (HR4-965) Mounted Hampton Cryo Loops 0.7 - 1.0 mm (HR4-965) SACLA goniometer 3.4 M Na-malonate, pH 5.0 and 100 mM NaNO2.
Measurement Diffraction ID Pulse Duration Pulse Repetition Rate Focal Spot Size Pulse Energy Photons Per Pulse 1 10 (fs) 30 undefined (KeV)
Data Reduction Diffraction ID Frames Indexed Crystal Hits Frames Indexed Latices Merged 1 1039 1257 1039
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.5 54.86 100 0.106 6.6 154.7 45846 22.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Split (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.54 100 0.853 2.3 50.8
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.5 54.86 43498 2295 99.99 0.14481 0.14343 0.1434 0.17053 0.1703 RANDOM 19.23
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_2_deg 33.831 r_dihedral_angle_4_deg 21.782 r_dihedral_angle_1_deg 21.215 r_dihedral_angle_3_deg 12.809 r_long_range_B_refined 4.666 r_long_range_B_other 4.323 r_scangle_other 3.584 r_scbond_it 2.524 r_scbond_other 2.472 r_mcangle_it 1.852
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.831 r_dihedral_angle_4_deg 21.782 r_dihedral_angle_1_deg 21.215 r_dihedral_angle_3_deg 12.809 r_long_range_B_refined 4.666 r_long_range_B_other 4.323 r_scangle_other 3.584 r_scbond_it 2.524 r_scbond_other 2.472 r_mcangle_it 1.852 r_mcangle_other 1.851 r_angle_refined_deg 1.594 r_mcbond_it 1.289 r_mcbond_other 1.287 r_angle_other_deg 1.053 r_chiral_restr 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 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 2574 Nucleic Acid Atoms Solvent Atoms 395 Heterogen Atoms 31
Software Software Software Name Purpose CrystFEL data reduction REFMAC refinement