X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microseeding
pH 7.5
Temperature 294.0
Details PEG 4000, ammonium acetate, glycerol, DTT, Hepes, Microseeding, pH 7.5 at 294 K, microseeding

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 74.6 α = 90
b = 172.72 β = 117.73
c = 80.01 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 123
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirror 2000-07-01
Diffraction Radiation
Monochromator Protocol
horizontally bent Si (111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F1 0.942 CHESS F1

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
2.21 100 98.6 0.038 -- -- 3.7 87343 87343 -- -3.0 32.8
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)
2.21 2.25 84.3 0.309 -- 3.3 2.8 3712

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
difference fourier 2.22 43.4 -3.0 -- 86963 86963 2002 98.6 -- -- 0.212 0.235 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 2.22 2.36 -- 340 13565 0.325 0.366 0.02 95.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 52.7
Anisotropic B[1][1] 3.91
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 12.64
Anisotropic B[2][2] -5.87
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.95
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.72
c_scbond_it 1.85
c_mcangle_it 1.85
c_mcbond_it 1.12
c_improper_angle_d 1.42
c_dihedral_angle_d 22.9
c_angle_deg 1.4
c_bond_d 0.011
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.29
Luzzati Sigma A (Observed) 0.35
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.34
Luzzati Sigma A (R-Free Set) 0.45
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11772
Nucleic Acid Atoms 0
Heterogen Atoms 299
Solvent Atoms 225

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
CNS version: 1.0 refinement
CNS model building