X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5
Temperature 293.0
Details di-ammonium citrate, PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.62 α = 90
b = 121.14 β = 90
c = 73.86 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r microfocus beam 2014-04-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 2 0.9801 SOLEIL PROXIMA 2

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
2.85 46.83 99.2 0.071 -- -- 4.1 -- 5817 -- -- 62.09
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)
2.85 3.0 99.4 0.613 -- 2.7 4.2 836

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 2.85 46.83 -- 1.17 -- 5814 1017 98.66 -- 0.2107 0.2047 0.2679 --
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 2.85 3.0003 -- 124 1419 0.3113 0.3883 -- 99.0
X Ray Diffraction 3.0003 3.1882 -- 149 1375 0.2789 0.2947 -- 99.0
X Ray Diffraction 3.1882 3.4343 -- 156 1367 0.2501 0.3314 -- 99.0
X Ray Diffraction 3.4343 3.7798 -- 165 1373 0.1991 0.2723 -- 99.0
X Ray Diffraction 3.7798 4.3264 -- 146 1393 0.1618 0.2443 -- 99.0
X Ray Diffraction 4.3264 5.4495 -- 130 1396 0.1834 0.2541 -- 98.0
X Ray Diffraction 5.4495 46.8397 -- 147 1371 0.1938 0.238 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 52.91
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_bond_d 0.004
f_chiral_restr 0.032
f_dihedral_angle_d 10.12
f_angle_d 0.443
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1245
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 10

Software

Software
Software Name Purpose
Aimless data scaling version: 0.1.27
PHASER phasing
PHENIX refinement
PDB_EXTRACT data extraction version: 3.15
XDS data reduction