X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 288.0
Details 0.02 M magnesium chloride hexahydrate, 0.1 M Na-HEPES (pH 7.5), 22% w/v poly(acrylic acid sodium salt) 5100

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.76 α = 90
b = 98.36 β = 90
c = 135.24 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2016-09-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04-1 0.920 Diamond I04-1

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
2.13 56.9 99.4 0.092 -- -- 4.3 -- 47309 -- -- --
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)
2.13 2.19 99.8 0.78 -- 1.9 4.3 --

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 2.13 56.9 -- 1.35 -- 47240 2306 99.21 -- 0.2117 0.2103 0.2378 --
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 2.1301 2.1764 -- 132 2795 0.2884 0.3148 -- 100.0
X Ray Diffraction 2.1764 2.227 -- 140 2789 0.2791 0.2923 -- 100.0
X Ray Diffraction 2.227 2.2827 -- 145 2754 0.276 0.2927 -- 99.0
X Ray Diffraction 2.2827 2.3444 -- 150 2782 0.2648 0.3072 -- 99.0
X Ray Diffraction 2.3444 2.4134 -- 173 2761 0.2671 0.2966 -- 99.0
X Ray Diffraction 2.4134 2.4913 -- 151 2763 0.2734 0.3084 -- 99.0
X Ray Diffraction 2.4913 2.5804 -- 143 2784 0.2413 0.2757 -- 100.0
X Ray Diffraction 2.5804 2.6837 -- 147 2782 0.2467 0.3031 -- 100.0
X Ray Diffraction 2.6837 2.8058 -- 121 2841 0.241 0.308 -- 100.0
X Ray Diffraction 2.8058 2.9537 -- 121 2838 0.2369 0.2954 -- 100.0
X Ray Diffraction 2.9537 3.1388 -- 129 2824 0.2353 0.2776 -- 99.0
X Ray Diffraction 3.1388 3.3811 -- 156 2753 0.2205 0.2648 -- 98.0
X Ray Diffraction 3.3811 3.7213 -- 144 2786 0.1937 0.2369 -- 98.0
X Ray Diffraction 3.7213 4.2596 -- 131 2841 0.1707 0.1817 -- 98.0
X Ray Diffraction 4.2596 5.3661 -- 157 2838 0.1545 0.1688 -- 99.0
X Ray Diffraction 5.3661 56.9 -- 166 3003 0.1934 0.2081 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 11.214
f_plane_restr 0.003
f_angle_d 0.698
f_chiral_restr 0.032
f_bond_d 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5321
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 294

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
xia2 data reduction
Aimless data scaling
PHASER phasing