X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 295.0
Details 42.5% saturated ammonium sulphate, 100mM Tris ph 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 129.31 α = 90
b = 74.83 β = 90
c = 78.65 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRANDEIS - B4 toroidal mirror 2000-10-24
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X12C 1.1 NSLS X12C

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
2.6 54 99.8 0.063 0.063 -- 6.3 24126 24126 2.0 2.0 53.1
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)
2.6 2.67 99.5 0.387 0.353 2.0 5.6 1686

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 2.6 54.0 0.0 0.0 24147 24083 1230 99.7 -- -- 0.218 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 2.6 2.64 975 49 -- 0.304 0.374 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 46.0
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 1.642
c_mcangle_it 1.832
c_improper_angle_d 0.911
c_dihedral_angle_d 25.954
c_scbond_it 2.977
c_scangle_it 3.002
c_angle_deg 1.407
c_bond_d 0.008
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.332
Luzzati Sigma A (Observed) 0.428
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.347
Luzzati Sigma A (R-Free Set) 0.449
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4994
Nucleic Acid Atoms 0
Heterogen Atoms 198
Solvent Atoms 244

Software

Software
Software Name Purpose
DENZO data reduction
SCALA data scaling
SOLVE phasing
MLPHARE phasing
FFFEAR model building
CNS refinement
CCP4 data scaling version: (SCALA)
FFFEAR phasing