X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 293.0
Details 6-10% Isopropanol, 50mM MES, 10mM magnesium chloride., pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 100.93 α = 90
b = 164.68 β = 90.14
c = 50.98 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M slits 2013-12-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04

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
2.3 35.91 98.8 0.03 0.025 -- 3.4 36392 36392 1.0 1.0 59.56
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)
2.3 2.36 99.0 0.695 0.498 2.1 3.4 2666

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
MAD 2.3 35.91 -- 0.0 34639 34639 1735 94.05 0.1829 0.1829 0.1811 0.2153 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 2.3 2.37 -- 125 2359 0.2141 0.2336 -- 94.05
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 85.6
Anisotropic B[1][1] -33.2893
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.9695
Anisotropic B[2][2] 18.9673
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 14.322
RMS Deviations
Key Refinement Restraint Deviation
t_bond_d 0.01
t_angle_deg 1.07
t_omega_torsion 2.99
t_other_torsion 20.71
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.355
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4721
Nucleic Acid Atoms 570
Heterogen Atoms 61
Solvent Atoms 60

Software

Software
Software Name Purpose
Diamond data collection version: GDA
SHARP phasing
BUSTER refinement version: 2.11.5
XDS data reduction
XDS data scaling