X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 300.0
Details PEG 4K, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 300K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.03 α = 90
b = 55.03 β = 90
c = 161.87 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-08-30
CCD ADSC QUANTUM 4 -- 2002-07-20
Diffraction Radiation
Monochromator Protocol
-- MAD
sagitally focused Si MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-D 1.2828,1.2894, 1.244, 1.3237 APS 14-BM-D
SYNCHROTRON CHESS BEAMLINE F2 1.2828,1.2894, 1.244, 1.3237 CHESS F2

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
2.7 27.5 -- 0.054 -- -- 5.33 7827 7827 0.0 0.0 36.3
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)
2.7 2.87 73.1 0.01145 -- 8.67 1.9 --

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 2.7 27.5 -- 0.0 7827 7827 786 93.6 -- 0.269 0.269 0.296 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 2.7 2.87 -- 37 906 0.326 0.318 0.052 69.4
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 47.8
Anisotropic B[1][1] 3.7
Anisotropic B[1][2] 6.7
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.7
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.4
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 3.41
c_scbond_it 2.45
c_mcangle_it 3.2
c_mcbond_it 1.79
c_improper_angle_d 1.01
c_bond_d 0.008
c_angle_deg 1.9
c_dihedral_angle_d 26.0
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.47
Luzzati Sigma A (R-Free Set) 0.51
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1813
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 147

Software

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