X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 298.0
Details 14% PEG 8000, 250mM magnesium acetate, 100 mM sodium cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP at 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 82.69 α = 90
b = 115.97 β = 90
c = 271.85 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 114
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-08-28
Diffraction Radiation
Monochromator Protocol
synchrotron SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-C 1.000 APS 14-BM-C

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
1.9 25 93.4 0.057 0.057 -- 4.1 96961 96961 0.0 0.0 35.98
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)
1.9 1.97 89.0 0.327 0.327 4.0 -- 9158

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 1.9 12.0 0.0 0.0 94416 94416 9418 92.1 0.223 0.223 0.22 0.254 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 1.9 1.97 8812 860 -- 0.307 0.335 -- --
X Ray Diffraction 1.97 2.05 9597 950 -- 0.272 0.299 -- --
X Ray Diffraction 2.05 2.14 9725 946 -- 0.264 0.294 -- --
X Ray Diffraction 2.14 2.25 9810 955 -- 0.258 0.295 -- --
X Ray Diffraction 2.25 2.39 9845 961 -- 0.242 0.295 -- --
X Ray Diffraction 2.39 2.57 9756 951 -- 0.233 0.262 -- --
X Ray Diffraction 2.57 2.83 9636 982 -- 0.234 0.277 -- --
X Ray Diffraction 2.83 3.23 9628 994 -- 0.217 0.256 -- --
X Ray Diffraction 3.23 4.05 9021 929 -- 0.197 0.229 -- --
X Ray Diffraction 4.05 12.0 8586 890 -- 0.197 0.227 -- --
RMS Deviations
Key Refinement Restraint Deviation
c_angle_deg 1.3
c_bond_d 0.007
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.26
Luzzati Sigma A (Observed) 0.25
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.3
Luzzati Sigma A (R-Free Set) 0.27
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8800
Nucleic Acid Atoms 0
Heterogen Atoms 32
Solvent Atoms 802

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
CNS Structure Refinement
Software
Software Name Purpose
CNS refinement
CNS model building