X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.7
Temperature 293.0
Details 4-10% PEG 4000, 4-6% glycerol, 30 mM magnesium chloride, 30 mM calcium chloride, 100 mM MES/Imidazole, pH 6.7, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 104.52 α = 90
b = 157.31 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 PSI PILATUS 6M -- 2011-12-15
Diffraction Radiation
Monochromator Protocol
LN2 cooled fixed-exit Si(111) monochromator, Sagittally - horizontally focussed SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 0.999950 SLS X06SA

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 72.14 99.1 -- -- -- 26.8 200646 198918 0.0 0.0 36.2
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)
2.0 2.05 92.5 -- -- 1.17 25.2 13684

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
Difference Fourier 2.0 72.1 -- 2.0 198918 198893 10028 99.13 -- 0.1702 0.1677 0.2174 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 2.0 2.024 -- 294 5333 0.3115 0.3247 -- 85.0
X Ray Diffraction 2.024 2.0478 -- 353 6215 0.2877 0.3241 -- 99.0
X Ray Diffraction 2.0478 2.0728 -- 325 6268 0.2703 0.3119 -- 100.0
X Ray Diffraction 2.0728 2.099 -- 352 6219 0.2734 0.3201 -- 99.0
X Ray Diffraction 2.099 2.1266 -- 348 6251 0.2625 0.3175 -- 99.0
X Ray Diffraction 2.1266 2.1558 -- 311 6225 0.245 0.3005 -- 99.0
X Ray Diffraction 2.1558 2.1866 -- 317 6245 0.2303 0.2908 -- 99.0
X Ray Diffraction 2.1866 2.2192 -- 339 6284 0.2197 0.2612 -- 99.0
X Ray Diffraction 2.2192 2.2539 -- 317 6284 0.2251 0.291 -- 100.0
X Ray Diffraction 2.2539 2.2908 -- 336 6247 0.2152 0.2866 -- 99.0
X Ray Diffraction 2.2908 2.3303 -- 349 6223 0.2077 0.2826 -- 99.0
X Ray Diffraction 2.3303 2.3727 -- 337 6315 0.1933 0.2537 -- 100.0
X Ray Diffraction 2.3727 2.4183 -- 345 6266 0.1919 0.2471 -- 100.0
X Ray Diffraction 2.4183 2.4677 -- 341 6286 0.179 0.2452 -- 99.0
X Ray Diffraction 2.4677 2.5214 -- 322 6302 0.1811 0.2538 -- 100.0
X Ray Diffraction 2.5214 2.58 -- 338 6290 0.1715 0.2483 -- 100.0
X Ray Diffraction 2.58 2.6445 -- 329 6284 0.1604 0.2211 -- 100.0
X Ray Diffraction 2.6445 2.7161 -- 319 6346 0.1696 0.2299 -- 100.0
X Ray Diffraction 2.7161 2.796 -- 376 6272 0.1688 0.2324 -- 100.0
X Ray Diffraction 2.796 2.8862 -- 319 6366 0.1597 0.2206 -- 100.0
X Ray Diffraction 2.8862 2.9894 -- 293 6354 0.1633 0.2319 -- 100.0
X Ray Diffraction 2.9894 3.1091 -- 340 6362 0.1573 0.2193 -- 100.0
X Ray Diffraction 3.1091 3.2506 -- 309 6378 0.1676 0.2166 -- 100.0
X Ray Diffraction 3.2506 3.422 -- 358 6355 0.17 0.2309 -- 100.0
X Ray Diffraction 3.422 3.6363 -- 347 6380 0.1607 0.2219 -- 100.0
X Ray Diffraction 3.6363 3.9171 -- 340 6376 0.1405 0.1744 -- 100.0
X Ray Diffraction 3.9171 4.3112 -- 322 6452 0.1262 0.1712 -- 100.0
X Ray Diffraction 4.3112 4.935 -- 351 6449 0.1042 0.1418 -- 100.0
X Ray Diffraction 4.935 6.217 -- 346 6510 0.1427 0.1751 -- 100.0
X Ray Diffraction 6.217 72.1843 -- 355 6728 0.1903 0.2211 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 5.2872
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.9205
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.3361
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.063
f_dihedral_angle_d 15.717
f_angle_d 1.14
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17356
Nucleic Acid Atoms 0
Heterogen Atoms 189
Solvent Atoms 1033

Software

Computing
Computing Package Purpose
REMDAQ Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
PHENIX (phenix.refine: 1.7.3_928) Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
PHENIX version: (phenix.refine: 1.7.3_928) model building
REMDAQ data collection