X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 298.0
Details Ammonium sulfate, Dithiothreitol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 117.34 α = 90
b = 117.34 β = 90
c = 119.87 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 140
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-11-24
Diffraction Radiation
Monochromator Protocol
Double-Crystal Si 111 crystals MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.979 SSRL BL9-2

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
2.95 71 99.8 0.077 -- -- 4.3 20090 20090 0.0 0.0 65.0
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)
2.95 3.3 99.9 0.454 45.4 1.7 4.3 5733

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
SIR AND MAD 2.95 71.0 0.0 0.0 20130 20090 1624 99.8 0.223 0.223 0.221 0.312 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 2.95 71.0 20090 1624 -- 0.221 0.312 -- 99.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Anisotropic
Anisotropic B[1][1] 7.39
Anisotropic B[1][2] 7.39
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 7.39
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -14.78
RMS Deviations
Key Refinement Restraint Deviation
t_dihedral_angle_d 22.39
t_angle_deg 1.9
t_bond_d 0.015
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3608
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 25

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
MLPHARE, SHARP Structure Solution
TNT Structure Refinement
Software
Software Name Purpose
TNT refinement
MLPHARE/SHARP model building