X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
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 = 104.51 α = 90
b = 156.61 β = 90
c = 182.42 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 PILATUS3 6M -- 2013-09-04
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA 0.980 SLS X10SA

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
1.8 71.96 99.9 -- 0.056 -- 6.7 -- 275542 -- -- --
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)
1.8 1.85 99.5 -- 2.45 0.84 6.2 --

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 1.8 71.956 -- 1.33 -- 275542 13781 99.92 -- 0.1686 0.1669 0.2015 --
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 1.8 1.8204 -- 452 8581 0.3521 0.3976 -- 99.0
X Ray Diffraction 1.8204 1.8419 -- 454 8633 0.3212 0.3303 -- 100.0
X Ray Diffraction 1.8419 1.8643 -- 457 8694 0.3097 0.3285 -- 100.0
X Ray Diffraction 1.8643 1.8879 -- 453 8606 0.2993 0.3392 -- 100.0
X Ray Diffraction 1.8879 1.9128 -- 454 8631 0.2839 0.3028 -- 100.0
X Ray Diffraction 1.9128 1.939 -- 458 8691 0.2838 0.3118 -- 100.0
X Ray Diffraction 1.939 1.9667 -- 457 8668 0.2688 0.2996 -- 100.0
X Ray Diffraction 1.9667 1.996 -- 454 8633 0.2518 0.2848 -- 100.0
X Ray Diffraction 1.996 2.0272 -- 459 8711 0.2338 0.251 -- 100.0
X Ray Diffraction 2.0272 2.0605 -- 454 8634 0.2208 0.252 -- 100.0
X Ray Diffraction 2.0605 2.096 -- 460 8712 0.2106 0.2358 -- 100.0
X Ray Diffraction 2.096 2.1341 -- 456 8676 0.2015 0.2374 -- 100.0
X Ray Diffraction 2.1341 2.1752 -- 456 8672 0.1946 0.2183 -- 100.0
X Ray Diffraction 2.1752 2.2196 -- 459 8708 0.1854 0.2188 -- 100.0
X Ray Diffraction 2.2196 2.2678 -- 457 8688 0.1848 0.229 -- 100.0
X Ray Diffraction 2.2678 2.3206 -- 457 8667 0.184 0.2178 -- 100.0
X Ray Diffraction 2.3206 2.3786 -- 458 8715 0.1789 0.2351 -- 100.0
X Ray Diffraction 2.3786 2.4429 -- 458 8694 0.1756 0.2085 -- 100.0
X Ray Diffraction 2.4429 2.5148 -- 457 8684 0.1718 0.2064 -- 100.0
X Ray Diffraction 2.5148 2.596 -- 460 8738 0.1684 0.2118 -- 100.0
X Ray Diffraction 2.596 2.6888 -- 460 8734 0.1741 0.2072 -- 100.0
X Ray Diffraction 2.6888 2.7964 -- 460 8741 0.1721 0.2124 -- 100.0
X Ray Diffraction 2.7964 2.9237 -- 461 8745 0.1734 0.2158 -- 100.0
X Ray Diffraction 2.9237 3.0779 -- 462 8780 0.1688 0.2153 -- 100.0
X Ray Diffraction 3.0779 3.2707 -- 461 8751 0.1654 0.2118 -- 100.0
X Ray Diffraction 3.2707 3.5232 -- 461 8768 0.155 0.1846 -- 100.0
X Ray Diffraction 3.5232 3.8778 -- 466 8837 0.1428 0.1728 -- 100.0
X Ray Diffraction 3.8778 4.4388 -- 466 8848 0.1264 0.1581 -- 100.0
X Ray Diffraction 4.4388 5.5921 -- 471 8931 0.1306 0.1602 -- 100.0
X Ray Diffraction 5.5921 72.0133 -- 483 9190 0.1608 0.1946 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.502
f_chiral_restr 0.054
f_bond_d 0.009
f_plane_restr 0.005
f_angle_d 1.157
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17294
Nucleic Acid Atoms 0
Heterogen Atoms 272
Solvent Atoms 1353

Software

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