X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.4
Temperature 297.0
Details PEG 4000, sodium acetate, ammonium acetate, pH 5.4, VAPOR DIFFUSION, HANGING DROP, temperature 297.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43.07 α = 90
b = 54.49 β = 90
c = 109.88 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2002-01-15
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.127 ALS 8.3.1

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 48.81 93.7 -- 0.081 -- 3.8 -- 17011 0.0 0.0 16.7
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)
2.0 2.13 85.6 -- 0.412 1.7 3.8 2268

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 2.0 48.81 0.0 0.0 18132 17011 1701 93.8 0.232 0.232 0.197 0.232 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 2.0 2.09 1865 183 1682 0.231 0.266 0.02 84.1
X Ray Diffraction 2.09 2.2 1999 224 1775 0.205 0.255 0.017 89.4
X Ray Diffraction 2.2 2.34 2031 176 1855 0.185 0.227 0.017 91.2
X Ray Diffraction 2.34 2.52 2089 215 1874 0.2 0.245 0.017 93.3
X Ray Diffraction 2.52 2.77 2156 210 1946 0.201 0.265 0.018 95.6
X Ray Diffraction 2.77 3.17 2181 233 1948 0.187 0.219 0.014 96.0
X Ray Diffraction 3.17 4.0 2268 219 2049 0.178 0.218 0.015 99.3
X Ray Diffraction 4.0 48.81 2422 241 2181 0.213 0.223 0.014 99.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 22.73
Anisotropic B[1][1] -1.03
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.14
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.89
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_deg 21.7
x_bond_d 0.005
x_torsion_impr_deg 0.79
x_angle_deg 1.2
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Luzzati Sigma A (Observed) 0.14
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.25
Luzzati Sigma A (R-Free Set) 0.18
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2183
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 108

Software

Software
Software Name Purpose
CNS refinement version: 1.1
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
CNS phasing