X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 0.8 M lithium sulfate, 0.1 M imidazole

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 180.58 α = 90
b = 180.58 β = 90
c = 392.29 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M -- 2016-12-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1 Photon Factory BL-5A

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
2.5 48.42 99.9 -- -- -- 20.4 -- 85003 -- -- --
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)
-- -- -- -- -- -- -- --

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
-- 2.5 48.42 -- 1.36 -- 84978 1562 99.91 -- 0.1823 0.1816 0.216 --
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 2.5001 2.5808 -- 139 7448 0.2354 0.3237 -- 99.0
X Ray Diffraction 2.5808 2.6731 -- 141 7509 0.2274 0.3109 -- 100.0
X Ray Diffraction 2.6731 2.7801 -- 141 7538 0.224 0.2682 -- 100.0
X Ray Diffraction 2.7801 2.9066 -- 142 7550 0.2221 0.2567 -- 100.0
X Ray Diffraction 2.9066 3.0598 -- 140 7523 0.2176 0.2595 -- 100.0
X Ray Diffraction 3.0598 3.2515 -- 142 7559 0.206 0.2345 -- 100.0
X Ray Diffraction 3.2515 3.5025 -- 141 7567 0.1905 0.2026 -- 100.0
X Ray Diffraction 3.5025 3.8548 -- 142 7596 0.1737 0.2226 -- 100.0
X Ray Diffraction 3.8548 4.4123 -- 144 7621 0.1506 0.1932 -- 100.0
X Ray Diffraction 4.4123 5.5577 -- 142 7644 0.1433 0.1605 -- 100.0
X Ray Diffraction 5.5577 48.433 -- 148 7861 0.1578 0.177 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.957
f_plane_restr 0.005
f_bond_d 0.006
f_chiral_restr 0.047
f_dihedral_angle_d 13.355
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11184
Nucleic Acid Atoms 0
Heterogen Atoms 126
Solvent Atoms 576

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
XDS data reduction
XDS data scaling
PHASER phasing