X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details pH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.76 α = 90
b = 77.76 β = 90
c = 99.32 γ = 120
Symmetry
Space Group P 31 1 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-18B -- Photon Factory BL-18B

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
1.6 100 92.7 0.068 -- -- 4.9 -- 42219 -- 1.0 16.8
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)
1.6 1.66 78.1 0.263 -- 1.0 -- --

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 1.6 8.0 -- 2.0 -- 41888 2138 92.9 -- -- 0.191 0.232 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.7
RMS Deviations
Key Refinement Restraint Deviation
x_mcbond_it 1.25
x_bond_d 0.008
x_scbond_it 3.06
x_improper_angle_d 1.19
x_angle_deg 1.3
x_dihedral_angle_d 19.3
x_mcangle_it 1.84
x_scangle_it 4.73
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.17
Luzzati Sigma A (Observed) 0.21
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.19
Luzzati Sigma A (R-Free Set) 0.23
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2272
Nucleic Acid Atoms 0
Heterogen Atoms 86
Solvent Atoms 151

Software

Software
Software Name Purpose
X-PLOR model building
X-PLOR refinement version: 3.1
DENZO data reduction
SCALEPACK data scaling
X-PLOR phasing