X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.5
Temperature 293.0
Details ammonium sulfate, sodium acetate, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 225.79 α = 90
b = 225.79 β = 90
c = 225.79 γ = 90
Symmetry
Space Group P 21 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 toroidal mirrors 2001-02-18
Diffraction Radiation
Monochromator Protocol
diamond (111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2

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
2.35 30 96.5 0.062 -- -- 3.1 152336 152336 0.0 0.0 35.0
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)
2.35 2.43 99.0 0.216 -- 2.7 3.1 15292

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
structure solved using the native as-isolated structure as starting model 2.35 30.0 0.0 0.0 149010 149010 3043 96.5 -- 0.197 0.197 0.267 thin resolution shells
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 2.35 2.44 16219 324 -- 0.24 -- -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model anisotropic
Mean Isotropic B 28.0
RMS Deviations
Key Refinement Restraint Deviation
s_non_zero_chiral_vol 0.022
s_anti_bump_dis_restr 0.0
s_bond_d 0.004
s_from_restr_planes 0.016
s_angle_d 0.015
Coordinate Error
Parameter Value
Occupancy Sum Non Hydrogen 23645.6
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 21134
Nucleic Acid Atoms 0
Heterogen Atoms 584
Solvent Atoms 1811

Software

Software
Software Name Purpose
DENZO data reduction
SCALA data scaling
CNS refinement
SHELXL-97 refinement
CCP4 data scaling version: (SCALA)
CNS phasing