XFEL structure of the free hNQO1 unmixed (P3083)
Serial Crystallography (SX)  
Starting Model(s)
| Initial Refinement Model(s) | 
|---|
| Type | Source | Accession Code | Details | 
|---|
|
experimental model | PDB | 8C9J |  | 
Crystallization
| Crystalization Experiments | 
|---|
| ID | Method | pH | Temperature | Details | 
|---|
| 1 | BATCH MODE | 7.5 | 298 | 0.1 M Tris pH 8.5, 0.2 M sodium acetate, 25% polyethylene glycol (PEG) 3350 | 
| Crystal Properties | 
|---|
| Matthews coefficient | Solvent content | 
|---|
| 2.62 | 52.97 | 
Crystal Data
| Unit Cell | 
|---|
| Length ( Å ) | Angle ( ˚ ) | 
|---|
| a = 61.6 | α = 90 | 
| b = 107.7 | β = 90 | 
| c = 198.6 | γ = 90 | 
| Symmetry | 
|---|
| Space Group | P 21 21 21 | 
|---|
Diffraction
| Diffraction Experiment | 
|---|
| ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | 
|---|
| 1 | 1 | x-ray | 298 | PIXEL | AGIPD |  | 2021-12-03 | M | SINGLE WAVELENGTH | 
| Radiation Source | 
|---|
| ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline | 
|---|
| 1 | FREE ELECTRON LASER | EUROPEAN XFEL BEAMLINE SPB/SFX | 1.3332 | European XFEL | SPB/SFX | 
Serial Crystallography
| Sample delivery method | 
|---|
| Diffraction ID | Description | Sample Delivery Method | 
|---|
| 1 |  | injection | 
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 | 2.5 | 27.03 | 100 | 0.204 | 4.3 | 489 |  | 44040 |  |  |  | 
| 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 | 2.5 | 2.56 |  |  | 0.695 |  |  |  | 
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 | MOLECULAR REPLACEMENT | THROUGHOUT | 2.5 | 27.03 | 44040 | 2350 | 99.39 | 0.19419 | 0.19205 | 0.2 | 0.23483 | 0.2401 | RANDOM | 46.879 | 
| 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] | 
|---|
| 0.01 |  |  | 0.01 |  | -0.02 | 
| RMS Deviations | 
|---|
| Key | Refinement Restraint Deviation | 
|---|
| r_dihedral_angle_3_deg | 14.88 | 
| r_long_range_B_other | 10.274 | 
| r_long_range_B_refined | 10.272 | 
| r_scangle_other | 7.829 | 
| r_dihedral_angle_1_deg | 6.486 | 
| r_dihedral_angle_2_deg | 6.169 | 
| r_mcangle_other | 5.821 | 
| r_mcangle_it | 5.818 | 
| r_scbond_it | 4.786 | 
| r_scbond_other | 4.779 | 
| RMS Deviations | 
|---|
| Key | Refinement Restraint Deviation | 
|---|
| r_dihedral_angle_3_deg | 14.88 | 
| r_long_range_B_other | 10.274 | 
| r_long_range_B_refined | 10.272 | 
| r_scangle_other | 7.829 | 
| r_dihedral_angle_1_deg | 6.486 | 
| r_dihedral_angle_2_deg | 6.169 | 
| r_mcangle_other | 5.821 | 
| r_mcangle_it | 5.818 | 
| r_scbond_it | 4.786 | 
| r_scbond_other | 4.779 | 
| r_mcbond_it | 3.74 | 
| r_mcbond_other | 3.732 | 
| r_angle_refined_deg | 1.376 | 
| r_angle_other_deg | 0.478 | 
| r_chiral_restr | 0.067 | 
| r_bond_refined_d | 0.006 | 
| r_gen_planes_refined | 0.005 | 
| r_bond_other_d | 0.001 | 
| r_gen_planes_other | 0.001 | 
| r_dihedral_angle_4_deg |  | 
| 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 | 8891 | 
| Nucleic Acid Atoms |  | 
| Solvent Atoms | 278 | 
| Heterogen Atoms |  | 
Software
| Software | 
|---|
| Software Name | Purpose | 
|---|
| REFMAC | refinement | 
| CrystFEL | data reduction | 
| CrystFEL | data scaling | 
| MOLREP | phasing |