X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 289.0
Details 0.1 M bis-tris, 0.2 M lithium sulfate monohydrate, 25% PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.2 α = 90
b = 53.81 β = 93.39
c = 40.81 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 S 6M -- 2017-01-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I24 0.96858 Diamond I24

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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
2.2 52.63 100.0 0.549 -- -- 16.1 -- 11700 -- -- --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.2 2.28 100.0 -- -- -- 15.0 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.2 52.51 -- 0.0 -- 11642 442 99.51 -- 0.196 0.194 0.2436 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.2 2.257 -- -- 876 0.257 -- -- 99.66
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 50.2919
Anisotropic B[1][1] -0.83
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.03
Anisotropic B[2][2] 1.73
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.89
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.008
r_chiral_restr 0.094
r_dihedral_angle_4_deg 20.491
r_bond_refined_d 0.013
r_dihedral_angle_2_deg 34.895
r_angle_refined_deg 1.606
r_mcangle_it 1.996
r_bond_other_d 0.0
r_mcbond_it 1.159
r_dihedral_angle_1_deg 6.671
r_dihedral_angle_3_deg 15.049
r_mcbond_other 1.158
r_gen_planes_refined 0.007
r_angle_other_deg 3.825
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1740
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 80

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0158
PDB_EXTRACT data extraction version: 3.10
DIALS data reduction version: 1.3
Aimless data scaling version: 0.5.23
PHASER phasing version: 2.7.16
REFMAC refinement version: 5.8.0158