X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 303.0
Details 0.75M ammonium sulphate, 100mM sodium citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP at 303K, VAPOR DIFFUSION, HANGING DROP, temperature 303.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 158.82 α = 90
b = 223.41 β = 90
c = 279.72 γ = 90
Symmetry
Space Group F 2 2 2

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 flat mirror (vertical focusing) 2001-03-11
CCD ADSC QUANTUM 315 flat mirror (vertical focusing) 2002-01-01
Diffraction Radiation
Monochromator Protocol
single crystal Si(III) bent monochromator (horizontal focusing) SINGLE WAVELENGTH
single crystal Si(III) bent monochromator (horizontal focusing) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.965 SSRL BL11-1
SYNCHROTRON SSRL BEAMLINE BL11-1 0.965 SSRL BL11-1

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
3 30 93.2 -- 0.077 -- 4.6 49633 45004 -- 1.0 59.0
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)
3.0 3.05 85.2 -- 0.348 3.9 -- 2114

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
-- 3.0 29.8 -- 3.0 49633 41869 3753 84.4 -- 0.228 0.228 0.283 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 3.0 3.19 -- 511 4571 0.331 0.408 0.018 62.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model GROUP
Mean Isotropic B 67.5
Anisotropic B[1][1] -17.08
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 16.08
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.87
c_bond_d 0.008
c_angle_deg 1.4
c_dihedral_angle_d 20.7
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.37
Luzzati Sigma A (Observed) 0.48
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.49
Luzzati Sigma A (R-Free Set) 0.62
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11914
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
CNS 1.1 Structure Refinement
Software
Software Name Purpose
CNS version: 1.1 refinement
CNS model building
SCALEPACK data reduction
DENZO data collection