X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 291.0
Details 2 M Na-Form, 0.1 M Tris, pH 8.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.94 α = 90
b = 85.94 β = 90
c = 98.73 γ = 120
Symmetry
Space Group P 6

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 S 6M -- 2017-05-16
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97949 CLSI 08ID-1

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
1.8 43.01 100.0 0.098 -- -- 10.0 -- 38485 -- -- --
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)
1.8 1.83 99.5 1.357 -- -- 9.2 --

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
-- 1.8 43.0 -- 0.0 -- 36874 1507 99.97 -- 0.1952 0.1944 0.216 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 1.8 1.847 -- 95 2747 0.274 0.284 0.0 99.93
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.893
Anisotropic B[1][1] -0.2
Anisotropic B[1][2] -0.1
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.64
RMS Deviations
Key Refinement Restraint Deviation
r_bond_other_d 0.002
r_angle_refined_deg 1.35
r_chiral_restr 0.079
r_dihedral_angle_2_deg 35.698
r_angle_other_deg 1.393
r_dihedral_angle_1_deg 8.36
r_dihedral_angle_4_deg 17.472
r_bond_refined_d 0.01
r_gen_planes_other 0.002
r_gen_planes_refined 0.008
r_dihedral_angle_3_deg 15.13
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2766
Nucleic Acid Atoms 0
Heterogen Atoms 51
Solvent Atoms 143

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0232
Aimless data scaling version: 0.6.2
PDB_EXTRACT data extraction version: 3.24
MOLREP phasing
HKL-3000 data reduction