X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 293.0
Details 0.1 M sodium citrate (pH 5.5) and 2.0 M ammonium sulfate

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.23 α = 90
b = 74.39 β = 90
c = 79.89 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 95
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 270 -- 2011-11-07
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 0.98 Photon Factory BL-17A

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
1.58 100 99.4 -- 0.057 -- 7.1 -- 56232 -- -- --
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)
1.58 1.61 100.0 0.459 -- 6.3 7.1 --

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
SAD 1.58 33.72 -- 1.36 -- 56063 2841 99.44 -- 0.2306 0.2296 0.2493 Random selection
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 1.58 1.6072 -- 104 2668 0.2462 0.284 -- 100.0
X Ray Diffraction 1.6072 1.6365 -- 145 2628 0.2486 0.285 -- 100.0
X Ray Diffraction 1.6365 1.6679 -- 150 2652 0.2439 0.2687 -- 100.0
X Ray Diffraction 1.6679 1.702 -- 155 2637 0.2352 0.3108 -- 100.0
X Ray Diffraction 1.702 1.739 -- 134 2634 0.2399 0.241 -- 100.0
X Ray Diffraction 1.739 1.7794 -- 141 2639 0.2395 0.2573 -- 100.0
X Ray Diffraction 1.7794 1.8239 -- 133 2647 0.2402 0.31 -- 100.0
X Ray Diffraction 1.8239 1.8732 -- 157 2647 0.2397 0.2766 -- 100.0
X Ray Diffraction 1.8732 1.9284 -- 133 2627 0.2266 0.2498 -- 100.0
X Ray Diffraction 1.9284 1.9906 -- 156 2669 0.2301 0.2391 -- 100.0
X Ray Diffraction 1.9906 2.0617 -- 138 2678 0.2253 0.2338 -- 100.0
X Ray Diffraction 2.0617 2.1443 -- 149 2662 0.2249 0.2461 -- 100.0
X Ray Diffraction 2.1443 2.2418 -- 136 2647 0.2281 0.2782 -- 100.0
X Ray Diffraction 2.2418 2.36 -- 166 2660 0.2405 0.2666 -- 100.0
X Ray Diffraction 2.36 2.5078 -- 152 2659 0.2438 0.2767 -- 100.0
X Ray Diffraction 2.5078 2.7014 -- 137 2688 0.2475 0.2612 -- 100.0
X Ray Diffraction 2.7014 2.9731 -- 124 2748 0.2488 0.3069 -- 100.0
X Ray Diffraction 2.9731 3.4029 -- 127 2719 0.2278 0.2315 -- 100.0
X Ray Diffraction 3.4029 4.286 -- 158 2691 0.201 0.2045 -- 99.0
X Ray Diffraction 4.286 33.728 -- 146 2622 0.2254 0.2315 -- 91.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 11.938
f_bond_d 0.007
f_chiral_restr 0.061
f_angle_d 0.862
f_plane_restr 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3016
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 90

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10_2155: ???)
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing