X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6
Temperature 291.0
Details 20% PEG 3350, 100 mM MES, 250 mM KCl, pH 6.0, VAPOR DIFFUSION, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.5 α = 90
b = 80.25 β = 90
c = 141.28 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
CCD DECTRIS PILATUS 6M -- 2011-11-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 DIAMOND I03

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 28.5 98.8 0.036 0.036 -- 4.0 81073 80100 0.0 0.0 29.5
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 1.9 98.6 0.572 -- -- 3.9 --

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
SAD 1.8 28.5 -- 0.0 81073 80100 1926 98.6 0.1992 0.1992 0.1986 0.2257 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 1.8001 1.8451 -- 121 4878 0.3151 0.3802 -- 84.0
X Ray Diffraction 1.8451 1.8949 -- 132 5081 0.2784 0.3605 -- 88.0
X Ray Diffraction 1.8949 1.9507 -- 125 5256 0.2588 0.2811 -- 90.0
X Ray Diffraction 1.9507 2.0136 -- 129 5408 0.2353 0.2623 -- 93.0
X Ray Diffraction 2.0136 2.0856 -- 136 5552 0.2259 0.3137 -- 95.0
X Ray Diffraction 2.0856 2.1691 -- 136 5641 0.2075 0.2646 -- 97.0
X Ray Diffraction 2.1691 2.2677 -- 141 5662 0.2057 0.2423 -- 97.0
X Ray Diffraction 2.2677 2.3872 -- 142 5686 0.1992 0.2754 -- 97.0
X Ray Diffraction 2.3872 2.5367 -- 142 5807 0.196 0.2302 -- 99.0
X Ray Diffraction 2.5367 2.7324 -- 139 5817 0.1927 0.2572 -- 99.0
X Ray Diffraction 2.7324 3.0071 -- 145 5845 0.2009 0.2098 -- 99.0
X Ray Diffraction 3.0071 3.4417 -- 141 5826 0.193 0.2143 -- 98.0
X Ray Diffraction 3.4417 4.3337 -- 148 5809 0.1736 0.1766 -- 97.0
X Ray Diffraction 4.3337 28.5141 -- 149 5906 0.194 0.2117 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -7.2132
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.3327
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.8805
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.057
f_dihedral_angle_d 15.211
f_angle_d 0.936
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4444
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 503

Software

Computing
Computing Package Purpose
GDA 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
GDA data collection