X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 298.0
Details 100 mM HEPES, 200 mM MgCl2, 31% PEG400

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 61.34 α = 90
b = 61.34 β = 90
c = 146.99 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M-F -- 2014-11-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 0.979 SLS X06DA

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
1.99 49.96 100.0 0.11 -- -- 19.3 -- 22719 -- -- 34.34
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)
1.99 2.04 100.0 1.69 -- 2.0 19.6 1674

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
FOURIER SYNTHESIS 1.992 49.961 -- 1.36 -- 22664 1128 99.97 -- 0.1642 0.1621 0.2056 --
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 1.9921 2.0828 -- 149 2619 0.2319 0.2649 -- 100.0
X Ray Diffraction 2.0828 2.1926 -- 141 2646 0.2021 0.2674 -- 100.0
X Ray Diffraction 2.1926 2.33 -- 143 2647 0.1788 0.2312 -- 100.0
X Ray Diffraction 2.33 2.5099 -- 127 2649 0.1623 0.2156 -- 100.0
X Ray Diffraction 2.5099 2.7624 -- 139 2681 0.1682 0.2313 -- 100.0
X Ray Diffraction 2.7624 3.1621 -- 147 2677 0.1686 0.2182 -- 100.0
X Ray Diffraction 3.1621 3.9837 -- 136 2743 0.1511 0.1735 -- 100.0
X Ray Diffraction 3.9837 49.9766 -- 146 2874 0.148 0.1906 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 45.7383
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.152
f_dihedral_angle_d 9.996
f_chiral_restr 0.059
f_bond_d 0.018
f_plane_restr 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2374
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 185

Software

Software
Software Name Purpose
Aimless data scaling version: 0.5.12
PHENIX refinement
PDB_EXTRACT data extraction version: 3.15
XDS data reduction
Coot model building