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 = 84.67 α = 90
b = 84.67 β = 90
c = 160.04 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
1.89 43.14 84.7 0.08 -- -- 7.4 45480 45480 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)
1.89 2.01 65.9 0.258 -- -- 2.43 5850

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
-- 1.89 43.14 0.0 0.0 45480 45480 4584 84.7 -- -- 0.219 0.257 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 1.89 2.01 -- 579 5271 0.296 0.331 0.014 65.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 25.7
Anisotropic B[1][1] 1.97
Anisotropic B[1][2] 4.35
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.97
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.94
RMS Deviations
Key Refinement Restraint Deviation
c_mcangle_it 2.05
c_scbond_it 2.0
c_dihedral_angle_d 22.6
x_angle_deg 1.4
c_improper_angle_d 0.76
x_bond_d 0.006
c_mcbond_it 1.35
c_scangle_it 2.87
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.25
Luzzati Sigma A (Observed) 0.24
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.3
Luzzati Sigma A (R-Free Set) 0.28
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4043
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 289

Software

Software
Software Name Purpose
CNS refinement
FRAMBO data collection
SIEMENS data reduction
SAINT data scaling
CNS phasing