X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 296.0
Details PEG 4000, Magnesium Chloride, Tris, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 61.25 α = 90
b = 97.57 β = 90.69
c = 81.31 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate -- 2000-05-21
Diffraction Radiation
Monochromator Protocol
Curved Crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 1.0000 SSRL BL9-1

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
2.11 25 99.6 -- 0.084 -- -- 64591 54280 -- 5.0 7.1
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)
2.11 2.19 98.5 -- 0.296 -- -- --

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
MOLECULAR REPLACEMENT 2.11 24.78 -- -3.0 54912 53056 4774 96.4 -- -- 0.21 0.251 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 2.11 2.24 -- 647 7614 0.243 0.277 0.011 90.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 22.7
Anisotropic B[1][1] -5.04
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.77
Anisotropic B[2][2] 10.27
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.23
RMS Deviations
Key Refinement Restraint Deviation
c_angle_deg 2.0
c_scbond_it 1.84
c_mcbond_it 1.25
c_mcangle_it 1.98
c_dihedral_angle_d 23.8
c_improper_angle_d 2.67
c_bond_d 0.013
c_scangle_it 2.58
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.3
Luzzati Sigma A (R-Free Set) 0.24
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7392
Nucleic Acid Atoms 0
Heterogen Atoms 98
Solvent Atoms 470

Software

Software
Software Name Purpose
MAR data collection
SCALEPACK data scaling
CNS refinement
MAR data reduction
CNS phasing