X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 10
Temperature 298.0
Details sodium phosphate, potassium phosphate, 3-(cyclohexylamino)-1-propane sulphonic acid (CAPS), pH 10.0, VAPOR DIFFUSION, HANGING DROP at 298K, temperature 298K, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.14 α = 90
b = 77.99 β = 90
c = 96.6 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 4 -- 2001-11-04
Diffraction Radiation
Monochromator Protocol
crystal monochromator + Si mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4A 0.9786 NSLS X4A

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
1.9 19.07 99.6 -- 0.073 -- 10.6 71418 69719 -- -3.0 21.0
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)
1.9 1.99 93.1 -- 0.361 6.7 10.0 8929

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
SAD 1.9 19.07 -- 2.0 71418 69719 6899 10.0 0.208 0.204 0.204 0.224 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 1.9 1.99 8316 821 -- 0.237 0.266 0.009 93.1
X Ray Diffraction 1.99 2.09 8625 794 -- 0.217 0.245 0.009 96.1
X Ray Diffraction 2.09 2.22 8686 871 -- 0.214 0.253 0.009 97.1
X Ray Diffraction 2.22 2.39 8750 854 -- 0.21 0.252 0.009 97.9
X Ray Diffraction 2.39 2.63 8802 882 -- 0.208 0.257 0.009 99.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 30.39
Anisotropic B[1][1] 6.3
RMS Deviations
Key Refinement Restraint Deviation
x_improper_angle_d 0.86
x_dihedral_angle_d 22.4
x_angle_deg 1.5
x_bond_d 0.007
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Luzzati Sigma A (Observed) 0.15
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.24
Luzzati Sigma A (R-Free Set) 0.18
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3264
Nucleic Acid Atoms 0
Heterogen Atoms 53
Solvent Atoms 246

Software

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