X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
pH 8
Details VAPOUR DIFFUSION(1:1): 17 % PEG 3350, 0.02 M NAK PHOSPHATE, 0.1 M BIS-TRIS PROPANE PH 8.0, 1 MM TCEP 15 MG/ML PROTEIN

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.74 α = 87.46
b = 93.9 β = 80.45
c = 162.81 γ = 68.33
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD (MAR225) MARRESEARCH -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 -- BESSY 14.2

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
1.95 34 94.0 0.09 -- -- 2.9 -- 359608 -- 2.0 16.33
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)
1.95 2.0 80.0 0.44 -- 2.38 2.7 --

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 1.95 33.936 -- 1.99 -- 351605 17580 94.82 -- 0.1958 0.1925 0.2573 --
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 1.95 2.0197 -- 1550 29444 0.2299 0.3193 -- 84.0
X Ray Diffraction 2.0197 2.1005 -- 1772 33672 0.2127 0.2995 -- 95.0
X Ray Diffraction 2.1005 2.1961 -- 1782 33854 0.2007 0.2899 -- 96.0
X Ray Diffraction 2.1961 2.3119 -- 1759 33425 0.1972 0.2847 -- 95.0
X Ray Diffraction 2.3119 2.4567 -- 1795 34114 0.193 0.2863 -- 97.0
X Ray Diffraction 2.4567 2.6463 -- 1791 34026 0.1875 0.2704 -- 97.0
X Ray Diffraction 2.6463 2.9125 -- 1800 34201 0.1905 0.268 -- 97.0
X Ray Diffraction 2.9125 3.3336 -- 1794 34078 0.1868 0.2448 -- 97.0
X Ray Diffraction 3.3336 4.1988 -- 1777 33767 0.182 0.2274 -- 96.0
X Ray Diffraction 4.1988 33.9409 -- 1760 33444 0.1896 0.2208 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -0.431
Anisotropic B[1][2] 0.5355
Anisotropic B[1][3] 0.7097
Anisotropic B[2][2] 1.5511
Anisotropic B[2][3] 5.0E-4
Anisotropic B[3][3] 1.2577
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.076
f_dihedral_angle_d 14.053
f_angle_d 1.109
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 39464
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 5676

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHASER model building