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 8 % PEG monomethyl ether 5000, 20% Glycerol, 200 mM Calcium Acetate, 100 mM PIPES pH 6.5, 2 mM dithioerythritol, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 99.75 α = 101.45
b = 136.97 β = 109.05
c = 141.53 γ = 103.94
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.2 1.2000 ALS 5.0.2

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
2.2 50 95.1 -- 0.093 -- 3.3 332287 313013 0.0 -1.0 30.4
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)
2.2 2.28 91.3 -- 0.39 -- -- --

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 and Molecular Replacement 2.2 20.0 -- 0.0 332269 301055 14965 90.6 -- -- 0.215 0.241 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 2.2 2.3 -- 1633 30212 0.287 0.315 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model anisotropic
Mean Isotropic B 41.0
Anisotropic B[1][1] 0.687
Anisotropic B[1][2] -4.288
Anisotropic B[1][3] -1.225
Anisotropic B[2][2] 0.449
Anisotropic B[2][3] -0.091
Anisotropic B[3][3] -1.136
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.012
c_improper_angle_d 0.865
c_angle_deg 1.389
c_mcbond_it 0.923
c_dihedral_angle_d 22.011
c_scbond_it 1.552
c_scangle_it 2.231
c_mcangle_it 1.525
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 43288
Nucleic Acid Atoms 0
Heterogen Atoms 136
Solvent Atoms 1229

Software

Software
Software Name Purpose
HKL-2000 data collection
SCALEPACK data scaling
SHELXD phasing
DM model building
DMMULTI model building
EPMR phasing
CNS refinement version: 1.0
DENZO data reduction
DM phasing
DMMULTI phasing