X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 292.0
Details well solution consisted of 1.0M Lithium Sulfate, 0.5M Ammonium Sulfate, 100mM Sodium Citrate, 1% Ethanol at 5.6, VAPOR DIFFUSION, HANGING DROP at 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 126.44 α = 90
b = 126.44 β = 90
c = 89.91 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2001-03-13
Diffraction Radiation
Monochromator Protocol
SSRL beam line 9-2 MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.9790 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
2.85 50 100.0 0.088 0.088 -- 7.3 19294 19294 0.0 -3.0 63.8
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)
2.85 2.95 100.0 0.541 0.541 -- 7.3 1912

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 2.85 30.0 0.0 0.2 19258 19202 1127 100.0 0.24 0.238 0.238 0.284 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 2.85 3.03 1912 178 2992 0.318 0.377 0.028 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 47.9
Anisotropic B[1][1] 0.22
Anisotropic B[1][2] -0.25
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.22
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.44
RMS Deviations
Key Refinement Restraint Deviation
x_bond_d 0.012
x_scbond_it 4.15
x_mcbond_it 3.69
x_scangle_it 6.09
x_angle_deg 1.6
x_mcangle_it 6.24
x_improper_angle_d 0.87
x_dihedral_angle_d 28.7
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.36
Luzzati Sigma A (Observed) 0.42
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.43
Luzzati Sigma A (R-Free Set) 0.48
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3725
Nucleic Acid Atoms 0
Heterogen Atoms 89
Solvent Atoms 27

Software

Software
Software Name Purpose
Blu-Ice data collection
SCALEPACK data scaling
MLPHARE phasing
X-PLOR refinement version: 98.1