X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6
Details PROTEIN CRYSTALLIZED IN 1.4M AMMONIUM SULFATE,100MM MES PH6, 2% PEG 2000 25MM MAGNESIUM ACETATE,2MM BETA-MERCAPTOETHANOL, pH 6.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.35 α = 90
b = 76.35 β = 90
c = 134.82 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH TOROIDAL MIRROR 2000-07-10
Diffraction Radiation
Monochromator Protocol
DIAMOND(111), GE(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 -- ESRF ID14-2

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
1.55 25.3 97.5 0.065 -- -- 10.8 -- 33359 -- -- 18.4
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)
1.55 1.63 96.0 0.179 -- 9.0 6.7 --

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
OTHER 1.55 25.27 -- 0.0 -- 33350 1684 96.7 -- 0.192 0.192 0.209 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 1.55 1.65 -- 260 5092 0.206 0.234 0.015 95.4
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 20.9
Anisotropic B[1][1] 1.49
Anisotropic B[1][2] 1.21
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.49
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.98
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 21.4
c_improper_angle_d 0.9
c_bond_d 0.004
c_mcangle_it 2.49
c_mcbond_it 1.83
c_scbond_it 2.61
c_angle_deg 1.1
c_scangle_it 3.45
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.17
Luzzati Sigma A (Observed) 0.09
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.19
Luzzati Sigma A (R-Free Set) 0.11
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3068
Nucleic Acid Atoms 0
Heterogen Atoms 102
Solvent Atoms 284

Software

Software
Software Name Purpose
CNS refinement version: 1.1
DENZO data reduction
SCALA data scaling
TRUNCATE data scaling