X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 4.2
Temperature 298.0
Details 25% PEG 8000, pH 4.2, VAPOR DIFFUSION, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 137.8 α = 90
b = 42.62 β = 114.92
c = 67.44 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PILATUS PSI PILATUS 6M -- 2012-08-18
Diffraction Radiation
Monochromator Protocol
Bartels SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 1.00 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
1.97 40.34 100.0 -- -- -- -- 25314 24656 0.0 0.0 --
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)
1.973 2.08 100.0 -- -- -- -- --

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 1.973 40.339 0.0 0.0 24593 23894 1212 94.23 0.2209 0.2209 0.2192 0.2526 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 1.973 2.052 -- 128 2342 0.2421 0.2927 -- 87.0
X Ray Diffraction 2.052 2.1454 -- 119 2371 0.2261 0.2787 -- 91.0
X Ray Diffraction 2.1454 2.2585 -- 146 2453 0.2222 0.287 -- 92.0
X Ray Diffraction 2.2585 2.4 -- 124 2470 0.23 0.2644 -- 93.0
X Ray Diffraction 2.4 2.5852 -- 139 2538 0.241 0.3105 -- 96.0
X Ray Diffraction 2.5852 2.8453 -- 152 2580 0.2427 0.3161 -- 97.0
X Ray Diffraction 2.8453 3.2569 -- 129 2588 0.2401 0.2817 -- 97.0
X Ray Diffraction 3.2569 4.1027 -- 136 2612 0.2032 0.205 -- 98.0
X Ray Diffraction 4.1027 40.3471 -- 139 2728 0.2021 0.2207 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 10.9461
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 10.2573
Anisotropic B[2][2] -6.0025
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.9437
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.063
f_dihedral_angle_d 23.95
f_angle_d 1.345
f_bond_d 0.013
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1181
Nucleic Acid Atoms 855
Heterogen Atoms 13
Solvent Atoms 156

Software

Computing
Computing Package Purpose
PXIII program Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7_650) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7_650) refinement
PHASER model building
PXIII version: program data collection