X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 16% PEG6000, 5% GLYCEROL, 100MM K-SUCCINATE PH6.5, 1.5M SORBITOL, pH 6.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.8 α = 90
b = 92.77 β = 90
c = 115.45 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
IMAGE PLATE MAR scanner 345 mm plate DOUBLE FOCUSING MIRRORS --
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 -- -- --

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 15 96.9 0.104 -- -- 5.8 -- 27470 -- -- 48.3
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 2.74 83.9 0.312 -- 2.4 3.6 --

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 2.6 15.0 -- 0.0 -- 27443 806 97.3 -- 0.2 0.2 0.252 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 2.76 -- 123 3792 0.301 0.39 0.035 85.2
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 37.6
Anisotropic B[1][1] -12.95
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 5.76
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 7.2
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 1.11
c_scbond_it 1.74
c_mcangle_it 1.79
c_scangle_it 2.57
c_dihedral_angle_d 23.6
c_angle_deg 1.4
c_improper_angle_d 1.9
c_bond_d 0.008
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.3
Luzzati Sigma A (Observed) 0.33
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.38
Luzzati Sigma A (R-Free Set) 0.42
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5920
Nucleic Acid Atoms 0
Heterogen Atoms 108
Solvent Atoms 296

Software

Software
Software Name Purpose
CNS refinement version: 1.0
DENZO data reduction
SCALA data scaling
AMoRE phasing