X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Liquid Diffusion
pH 5.5
Temperature 277.0
Details PEG 8000, Ammomium Sulfate, pH 5.5, LIQUID DIFFUSION, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.2 α = 90
b = 46.2 β = 90
c = 387.2 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- --
IMAGE PLATE RIGAKU RAXIS V -- --
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL40B2 -- SPring-8 BL40B2
SYNCHROTRON SPRING-8 BEAMLINE BL45XU -- SPring-8 BL45XU

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
1.76 39.8 -- -- -- -- -- 25938 n/a 0.0 -- 6.5

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
MAD 2.0 39.8 -- -- 17987 17884 1774 99.4 -- -- 0.194 0.248 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 2.09 2125 205 1920 0.197 0.271 0.019 98.7
X Ray Diffraction 2.09 2.2 2155 198 1957 0.207 0.257 0.018 99.3
X Ray Diffraction 2.2 2.34 2159 233 1926 0.183 0.278 0.018 99.5
X Ray Diffraction 2.34 2.52 2193 219 1974 0.208 0.266 0.018 99.5
X Ray Diffraction 2.52 2.77 2209 208 2001 0.189 0.242 0.017 99.6
X Ray Diffraction 2.77 3.17 2230 231 1999 0.203 0.257 0.017 99.6
X Ray Diffraction 3.17 4.0 2310 229 2081 0.186 0.232 0.015 99.7
X Ray Diffraction 4.0 39.8 2503 251 2252 0.192 0.227 0.014 98.9
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.48
Anisotropic B[1][1] 0.36
Anisotropic B[1][2] -0.01
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.35
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.005
c_torsion_deg 26.2
c_torsion_impr_deg 0.65
c_angle_deg 1.3
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Luzzati Sigma A (Observed) 0.11
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.27
Luzzati Sigma A (R-Free Set) 0.19
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1765
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 320

Software

Software
Software Name Purpose
CNS refinement version: 1.1
CNS phasing