X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details trisodium citrate, sodium HEPES, sucrose, pH 7.5-8.5, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 112.72 α = 90
b = 112.72 β = 90
c = 90.01 γ = 120
Symmetry
Space Group P 62 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 150
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD SBC-2 -- 2002-08-31
Diffraction Radiation
Monochromator Protocol
sagitally focused Si(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97940, 0.97926, 0.95372 APS 19-ID

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
2.5 50 89.2 -- -- -- -- 22141 19743 1.5 0.0 38.1

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 2.5 48.81 -- 1.5 22142 17370 1593 78.4 0.238 0.223 0.221 0.238 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 2.5 2.61 1165 105 1060 0.329 0.356 0.035 42.3
X Ray Diffraction 2.61 2.75 1567 119 1448 0.299 0.328 0.03 56.6
X Ray Diffraction 2.75 2.92 1998 179 1819 0.289 0.327 0.024 72.0
X Ray Diffraction 2.92 3.15 2332 230 2102 0.271 0.284 0.019 84.1
X Ray Diffraction 3.15 3.47 2506 279 2227 0.236 0.238 0.014 90.1
X Ray Diffraction 3.47 3.97 2594 207 2387 0.195 0.243 0.017 93.8
X Ray Diffraction 3.97 5.0 2651 265 2386 0.171 0.177 0.011 95.6
X Ray Diffraction 5.0 48.81 2557 209 2348 0.226 0.247 0.017 92.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model restrained
Mean Isotropic B 52.95
Anisotropic B[1][1] -10.64
Anisotropic B[1][2] -0.89
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -10.64
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 21.27
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_deg 22.0
x_bond_d 0.009
x_torsion_impr_deg 0.88
x_angle_deg 1.6
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.33
Luzzati Sigma A (Observed) 0.47
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.36
Luzzati Sigma A (R-Free Set) 0.51
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1309
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 138

Software

Software
Software Name Purpose
CNS refinement version: 1.1
d*TREK data reduction
HKL-2000 data reduction
SCALEPACK data scaling
CNS phasing
SOLVE phasing
RESOLVE phasing