X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Details 20% PEG 400, 200MM MGCL2, 100 MM HEPES PH 7.5, VAPOR DIFFUSION, HANGING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43 α = 90
b = 55.9 β = 90
c = 128.4 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 130
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC YALE MIRRORS 1995-11
Diffraction Radiation
Monochromator Protocol
YALE MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 -- -- --

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
2.1 20 87.0 -- 0.064 -- 2.4 -- 8185 -- -2.0 --
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)
2.1 2.17 76.0 -- 0.093 10.9 1.8 --

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
ISOMORPHOUS MOLECULAR REPLACEMENT 2.1 20.0 -- 0.0 -- 8173 893 87.0 -- 0.225 0.225 0.27 BASED ON 1AAY TEST SET
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 2.1 2.2 -- 89 807 0.359 0.411 0.044 76.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED INDIVIDUAL
Mean Isotropic B 36.4
Anisotropic B[1][1] 16.162
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 20.534
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.332
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 3.564
x_scbond_it 1.888
x_mcangle_it 2.251
x_mcbond_it 1.207
x_improper_angle_d 1.226
x_bond_d 0.006
x_angle_deg 1.3
x_dihedral_angle_d 22.751
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 695
Nucleic Acid Atoms 445
Heterogen Atoms 3
Solvent Atoms 88

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
X-PLOR Structure Solution
X-PLOR 3.8 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.8 refinement
X-PLOR model building