X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.4
Temperature 281.15
Details 28% PEG 4K, 0.2M Na Acetate, 0.1M Tris/Hcl, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 281.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 159.68 α = 90
b = 159.68 β = 90
c = 97.82 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-01-01
Diffraction Radiation
Monochromator Protocol
Double crystal, Si(111) or Si(311) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.9792 ESRF ID14-4

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
1.5 10 90.0 0.144 0.117 -- 2.6 138708 138708 -- 3.0 13.189
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)
1.5 1.58 91.8 0.22 0.177 6.2 2.5 15550

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 1.5 10.0 -- 0.0 -- 133860 12032 90.0 -- -- 0.19 0.208 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 1.5 1.51 2525 252 -- 0.2151 0.235 -- --
X Ray Diffraction 1.97 2.0 2403 240 -- 0.1887 0.2151 -- --
X Ray Diffraction 2.41 2.48 2456 238 -- 0.1878 0.1925 -- --
X Ray Diffraction 4.39 5.53 2273 215 -- 0.1753 0.2076 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model restrained
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_deg 0.81
c_bond_d 0.004
c_angle_deg 1.26
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.16
Luzzati Sigma A (Observed) 0.06
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.18
Luzzati Sigma A (R-Free Set) 0.08
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7034
Nucleic Acid Atoms 0
Heterogen Atoms 93
Solvent Atoms 719

Software

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