X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6.7
Temperature 293.0
Details 5% PEG, 12% glycerol, 30 mM magnesium chloride, 30 mM calcium chloride, 0.1M MES/0.1M imidazole

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.68 α = 90
b = 157.2 β = 90
c = 180.99 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
PIXEL DECTRIS PILATUS 2M -- 2013-10-02
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 1.00002 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
2.1 48.3 99.9 -- 0.106 -- 13.6 -- 175571 -- -- --
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)
2.1 2.15 99.6 -- 4.643 0.6 13.0 --

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 2.1 48.27 -- 1.33 -- 175542 8728 99.9 -- 0.187 0.184 0.231 --
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 2.1 2.1238 -- 294 5473 0.3991 0.4108 -- 99.0
X Ray Diffraction 2.1238 2.1488 -- 294 5469 0.3685 0.4017 -- 100.0
X Ray Diffraction 2.1488 2.175 -- 300 5485 0.3461 0.3604 -- 100.0
X Ray Diffraction 2.175 2.2026 -- 292 5532 0.3283 0.3661 -- 100.0
X Ray Diffraction 2.2026 2.2315 -- 309 5487 0.3265 0.3651 -- 100.0
X Ray Diffraction 2.2315 2.2621 -- 279 5506 0.3149 0.333 -- 100.0
X Ray Diffraction 2.2621 2.2944 -- 304 5502 0.3029 0.3456 -- 100.0
X Ray Diffraction 2.2944 2.3287 -- 276 5509 0.293 0.3558 -- 100.0
X Ray Diffraction 2.3287 2.3651 -- 310 5484 0.2848 0.342 -- 100.0
X Ray Diffraction 2.3651 2.4038 -- 295 5552 0.2676 0.3293 -- 100.0
X Ray Diffraction 2.4038 2.4453 -- 318 5482 0.257 0.3042 -- 100.0
X Ray Diffraction 2.4453 2.4897 -- 281 5510 0.2377 0.2917 -- 100.0
X Ray Diffraction 2.4897 2.5376 -- 287 5529 0.2302 0.2763 -- 100.0
X Ray Diffraction 2.5376 2.5894 -- 298 5537 0.2229 0.2789 -- 100.0
X Ray Diffraction 2.5894 2.6457 -- 291 5542 0.2207 0.2908 -- 100.0
X Ray Diffraction 2.6457 2.7073 -- 314 5521 0.2234 0.3009 -- 100.0
X Ray Diffraction 2.7073 2.775 -- 292 5513 0.2129 0.2618 -- 100.0
X Ray Diffraction 2.775 2.85 -- 284 5560 0.2032 0.2546 -- 100.0
X Ray Diffraction 2.85 2.9338 -- 268 5569 0.2075 0.2891 -- 100.0
X Ray Diffraction 2.9338 3.0285 -- 285 5578 0.2025 0.2518 -- 100.0
X Ray Diffraction 3.0285 3.1367 -- 289 5532 0.1984 0.2646 -- 100.0
X Ray Diffraction 3.1367 3.2623 -- 264 5610 0.1958 0.2383 -- 100.0
X Ray Diffraction 3.2623 3.4107 -- 297 5567 0.1916 0.2495 -- 100.0
X Ray Diffraction 3.4107 3.5905 -- 290 5577 0.181 0.2207 -- 100.0
X Ray Diffraction 3.5905 3.8154 -- 261 5644 0.1704 0.2208 -- 100.0
X Ray Diffraction 3.8154 4.1098 -- 264 5647 0.1457 0.1882 -- 100.0
X Ray Diffraction 4.1098 4.5231 -- 285 5626 0.135 0.1712 -- 100.0
X Ray Diffraction 4.5231 5.177 -- 297 5652 0.1325 0.183 -- 100.0
X Ray Diffraction 5.177 6.5199 -- 301 5719 0.1608 0.2148 -- 100.0
X Ray Diffraction 6.5199 48.2847 -- 309 5900 0.1543 0.1756 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.568
f_chiral_restr 0.038
f_plane_restr 0.004
f_bond_d 0.007
f_angle_d 0.968
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17302
Nucleic Acid Atoms 0
Heterogen Atoms 181
Solvent Atoms 388

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
XDS data reduction
XSCALE data scaling
PHENIX phasing