X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 12-16% PEG 6000, 0.1 M Tris-HCl pH 8.0, 0.5 M LiCl, 12.5% glycerol, and 5% PEG-400, vapor diffusion, hanging drop, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.28 α = 90
b = 75.28 β = 90
c = 179.85 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD -- -- 2011-08
Diffraction Radiation
Monochromator Protocol
-- MULTIPLE WAVELENGTH ANOMALOUS SCATTERING
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 0.97935,0.97954, 0.94936 APS 23-ID-B

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
3 100 99.7 0.083 -- -- 9.4 -- 11051 -- -- --
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)
3.0 3.05 100.0 0.77 -- 2.8 9.7 --

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
MAD 3.0 45.809 -- 0.79 -- 10958 1097 99.76 -- 0.2699 0.2674 0.2916 --
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 3.0001 3.1366 -- 134 1210 0.3684 0.4302 -- 100.0
X Ray Diffraction 3.1366 3.3019 -- 132 1188 0.3327 0.4064 -- 100.0
X Ray Diffraction 3.3019 3.5087 -- 135 1205 0.2975 0.3093 -- 100.0
X Ray Diffraction 3.5087 3.7795 -- 135 1223 0.2721 0.3105 -- 100.0
X Ray Diffraction 3.7795 4.1596 -- 135 1210 0.2418 0.2456 -- 100.0
X Ray Diffraction 4.1596 4.761 -- 137 1239 0.2217 0.2358 -- 100.0
X Ray Diffraction 4.761 5.9962 -- 139 1251 0.2892 0.3181 -- 100.0
X Ray Diffraction 5.9962 45.8142 -- 150 1335 0.2373 0.2547 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -1.8312
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.8312
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.6623
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.263
f_chiral_restr 0.036
f_bond_d 0.003
f_angle_d 0.553
f_plane_restr 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2675
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 0

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
SOLVE phasing
RESOLVE phasing
PHENIX refinement version: 1.7.3_928
PDB_EXTRACT data extraction version: 3.11