X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 298.0
Details 55% Polypropylene Glycol 400, 0.1 M Bis-Tris pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.35 α = 90
b = 69.35 β = 90
c = 128.39 γ = 90
Symmetry
Space Group P 41 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 200
2 200
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 1997-07-24
CCD ADSC QUANTUM 4 -- 1998-12-06
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F2 0.9791,0.9789,0.9364 CHESS F2
SYNCHROTRON CHESS BEAMLINE A1 -- CHESS A1

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
2.25 20.33 96.2 0.077 -- -- 5.2 15553 14962 0.0 0.0 24.6
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)
2.25 2.33 92.4 0.125 -- -- 4.0 --

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 2.25 20.0 0.0 2.0 15503 14487 714 93.8 0.253 0.249 0.241 0.297 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 2.25 2.39 -- 117 2195 0.284 0.36 0.033 91.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 41.8
Anisotropic B[1][1] -1.68
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.68
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.37
RMS Deviations
Key Refinement Restraint Deviation
c_scbond_it 2.98
c_bond_d 0.008
c_mcbond_it 2.03
c_scangle_it 4.13
c_mcangle_it 3.06
c_angle_deg 1.343
c_dihedral_angle_d 24.0
c_improper_angle_d 0.9
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.33
Luzzati Sigma A (Observed) 0.27
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.41
Luzzati Sigma A (R-Free Set) 0.34
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2210
Nucleic Acid Atoms 0
Heterogen Atoms 56
Solvent Atoms 53

Software

Software
Software Name Purpose
DENZO data reduction
MOSFLM data reduction
SCALEPACK data scaling
SCALA data scaling
TRUNCATE data reduction
SOLVE phasing
SHARP phasing
CNS refinement
CCP4 data scaling version: (SCALA
TRUNCATE data scaling