X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.8
Temperature 278.0
Details 100 mM Na-acetate, 6% PEG 4000, pH 4.8, VAPOR DIFFUSION, HANGING DROP at 278K, temperature 278.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 84.59 α = 90
b = 84.59 β = 90
c = 159.63 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR SIEMENS HI-STAR -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 -- -- --

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
2.06 43.05 81.7 0.088 -- -- 9.4 34118 34118 0.0 0.0 11.1
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)
2.06 2.13 21.9 0.461 -- -- 4.4 1641

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
-- 2.06 43.05 0.0 0.0 34118 34118 3396 81.7 -- -- 0.216 0.259 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 2.13 -- 159 1482 0.363 0.396 0.031 21.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 27.7
Anisotropic B[1][1] 7.32
Anisotropic B[1][2] 6.47
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 7.32
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -14.63
RMS Deviations
Key Refinement Restraint Deviation
x_bond_d 0.006
c_mcangle_it 2.1
c_mcbond_it 1.34
x_angle_deg 1.3
c_scbond_it 2.03
c_dihedral_angle_d 22.4
c_improper_angle_d 0.76
c_scangle_it 2.88
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.28
Luzzati Sigma A (Observed) 0.29
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.32
Luzzati Sigma A (R-Free Set) 0.34
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3963
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 254

Software

Software
Software Name Purpose
CNS refinement version: 1.0
FRAMBO data reduction
SIEMENS data reduction
SAINT data scaling