X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details 0.1M Ammonium tartrate dibasic, 12% PEG 3350 , pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 186.72 α = 90
b = 186.72 β = 90
c = 166.7 γ = 120
Symmetry
Space Group P 63

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.2 1 ALS 8.2.2

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
3.3 20 91.9 -- -- -- -- 50237 46186 2.0 2.0 --

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
MOLECULAR REPLACEMENT 3.3 19.826 -- 0.0 50343 44267 2346 87.93 -- 0.2643 0.2633 0.2846 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 3.2791 3.3607 -- 74 1629 0.4407 0.4314 -- 48.0
X Ray Diffraction 3.3607 3.4511 -- 97 2113 0.4298 0.4281 -- 62.0
X Ray Diffraction 3.4511 3.5521 -- 121 2566 0.4144 0.3917 -- 75.0
X Ray Diffraction 3.5521 3.6661 -- 146 2977 0.3917 0.4138 -- 87.0
X Ray Diffraction 3.6661 3.7962 -- 140 3096 0.3573 0.375 -- 90.0
X Ray Diffraction 3.7962 3.9471 -- 141 3126 0.3337 0.3463 -- 92.0
X Ray Diffraction 3.9471 4.1252 -- 141 3154 0.2845 0.3188 -- 92.0
X Ray Diffraction 4.1252 4.3405 -- 147 3283 0.2559 0.2382 -- 95.0
X Ray Diffraction 4.3405 4.6093 -- 148 3308 0.2274 0.263 -- 96.0
X Ray Diffraction 4.6093 4.96 -- 154 3334 0.2072 0.2376 -- 98.0
X Ray Diffraction 4.96 5.4497 -- 156 3401 0.2105 0.2217 -- 98.0
X Ray Diffraction 5.4497 6.2169 -- 153 3415 0.2136 0.2318 -- 99.0
X Ray Diffraction 6.2169 7.754 -- 159 3438 0.2103 0.2523 -- 99.0
X Ray Diffraction 7.754 19.8264 -- 157 3493 0.21 0.2463 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 12.0564
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 12.0564
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -24.1129
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.092
f_dihedral_angle_d 20.012
f_angle_d 1.502
f_bond_d 0.013
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9630
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASES Structure Solution
PHENIX (phenix.refine: 1.7_629) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7_629) refinement
PHASES model building
HKL-2000 data collection