X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 277.0
Details Na citrate 0.46M

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 148.16 α = 90
b = 264.67 β = 90
c = 268.94 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M-F -- 2017-05-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 0.99996 SLS X06SA

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
3.5 43.8 99.9 -- 0.35 -- 8.39 -- 133413 -- -- --
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)
3.5 3.72 100.0 -- -- 2.58 8.47 --

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 3.5 43.87 -- -- -- 126742 6671 99.88 -- 0.20793 0.20513 0.26205 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 3.5 3.59 -- 483 9185 0.315 0.365 -- 99.45
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 72.258
Anisotropic B[1][1] 2.68
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.08
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.75
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_other 4.661
r_mcbond_other 2.77
r_angle_other_deg 0.909
r_dihedral_angle_3_deg 15.86
r_dihedral_angle_4_deg 15.407
r_scangle_other 4.133
r_scbond_it 2.347
r_bond_other_d 0.002
r_dihedral_angle_2_deg 34.097
r_gen_planes_refined 0.005
r_gen_planes_other 0.001
r_bond_refined_d 0.008
r_dihedral_angle_1_deg 6.701
r_mcangle_it 4.661
r_chiral_restr 0.075
r_scbond_other 2.347
r_long_range_B_refined 6.872
r_mcbond_it 2.77
r_angle_refined_deg 1.321
r_long_range_B_other 6.872
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 41090
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 33

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0155
XDS data reduction
XSCALE data scaling
PHASER phasing