X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 9
Details pH 9.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 39.25 α = 90
b = 94.9 β = 98
c = 96.2 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS MIRRORS --
Diffraction Radiation
Monochromator Protocol
NI FILTER SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID -- APS 17-ID

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 15 99.0 0.08 0.08 -- 5.0 -- 40000 -- 0.0 53.0

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 2.5 8.0 -- 2.0 -- 17219 1751 73.4 -- -- 0.246 0.303 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 2.5 2.65 -- 143 1107 0.281 0.326 0.027 32.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 57.0
Anisotropic B[1][1] 1.15
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.17
Anisotropic B[2][2] 2.09
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.24
RMS Deviations
Key Refinement Restraint Deviation
x_mcangle_it 4.36
x_dihedral_angle_d 21.9
x_improper_angle_d 0.99
x_mcbond_it 2.69
x_angle_deg 1.4
x_scbond_it 3.94
x_scangle_it 5.6
x_bond_d 0.01
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.33
Luzzati Sigma A (Observed) 0.27
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.42
Luzzati Sigma A (R-Free Set) 0.3
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4330
Nucleic Acid Atoms 0
Heterogen Atoms 76
Solvent Atoms 87

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS 0.5 Structure Refinement
Software
Software Name Purpose
CNS version: 0.5 refinement