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_scangle_it 2.231
c_scbond_it 1.552
c_mcangle_it 1.525
c_mcbond_it 0.923
c_improper_angle_d 0.865
c_bond_d 0.012
c_angle_deg 1.389
c_dihedral_angle_d 22.011
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

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SHELXD, DM, DMMULTI, EPMR Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
CNS version: 1.0 refinement
EPMR model building
DMMULTI model building
DM model building
SHELXD model building
SCALEPACK data reduction
HKL-2000 data collection