X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 298.0
Details 0.1M MES sodium salt pH 6.5, 2.0M Ammonium sulfate, 5% w/v PEG 400, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 116.82 α = 90
b = 116.82 β = 90
c = 64.08 γ = 120
Symmetry
Space Group P 6 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M-F -- 2014-04-03
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.97920 APS 24-ID-C

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
2.3 54.13 98.6 0.102 -- -- -- 11772 11772 -- -3.0 50.92
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)
2.3 2.36 94.2 0.014 -- 1.08 -- --

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 2.3 54.134 -- 0.0 11771 11771 1178 98.58 0.2328 0.2328 0.2289 0.2679 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 2.3 2.52 -- 270 2425 0.2356 0.3006 -- 98.58
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 80.26
Anisotropic B[1][1] 6.2816
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.2816
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -12.5631
RMS Deviations
Key Refinement Restraint Deviation
t_angle_deg 1.28
t_omega_torsion 2.74
t_other_torsion 20.48
t_bond_d 0.01
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.624
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1738
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 4

Software

Software
Software Name Purpose
XSCALE data scaling
PHASER phasing version: 2.5.6
BUSTER-TNT refinement
PDB_EXTRACT data extraction version: 3.15
BUSTER refinement version: 2.10.0