X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 298.0
Details 16-20% (wt/vol) PEG 4000, 0.2M calcium acetate, 0.1M Tris-HCl

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 33.59 α = 90
b = 78.85 β = 90
c = 110.64 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2014-12-04
Diffraction Radiation
Monochromator Protocol
double crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 0.978550 ALS 8.3.1

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
1.9 50 99.1 0.053 -- -- 4.1 -- 23788 -- -- --
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)
1.9 2.01 98.8 0.62 -- 2.5 4.1 --

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 1.9 37.137 -- 1.36 -- 22572 1216 99.07 -- 0.1868 0.1848 0.2243 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 1.8995 1.9755 -- 127 2473 0.2467 0.2883 -- 98.0
X Ray Diffraction 1.9755 2.0654 -- 126 2458 0.2174 0.2767 -- 100.0
X Ray Diffraction 2.0654 2.1743 -- 125 2499 0.2081 0.2344 -- 100.0
X Ray Diffraction 2.1743 2.3105 -- 137 2485 0.1998 0.2725 -- 100.0
X Ray Diffraction 2.3105 2.4889 -- 140 2490 0.2011 0.2346 -- 100.0
X Ray Diffraction 2.4889 2.7393 -- 129 2526 0.2049 0.2415 -- 100.0
X Ray Diffraction 2.7393 3.1355 -- 155 2518 0.1972 0.2457 -- 100.0
X Ray Diffraction 3.1355 3.9496 -- 135 2559 0.1708 0.1951 -- 100.0
X Ray Diffraction 3.9496 37.1437 -- 142 2563 0.16 0.2028 -- 95.0
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.008
f_angle_d 1.193
f_chiral_restr 0.052
f_plane_restr 0.006
f_dihedral_angle_d 14.572
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2161
Nucleic Acid Atoms 0
Heterogen Atoms 90
Solvent Atoms 123

Software

Software
Software Name Purpose
PHENIX refinement version: (phenix.refine: 1.9_1692)
XDS data scaling
Coot model building