X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 289.0
Details 0.2 M NaCl, 0.1 M Tris-HCl pH 8.0, 25% (w/v) PEG3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.2 α = 90
b = 118.87 β = 90.31
c = 98.34 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm -- 2018-04-25
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.9793 SSRF BL17U

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
2.49 50 97.26 0.1 -- -- 4.5 -- 48679 -- -- --
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)
2.49 2.53 93.3 0.53 -- -- -- --

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 2.491 38.672 -- 1.38 -- 48644 2441 97.29 -- 0.2022 0.1993 0.255 --
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 2.491 2.5419 -- 115 2676 0.2736 0.3931 -- 97.0
X Ray Diffraction 2.5419 2.5971 -- 132 2716 0.2699 0.3402 -- 96.0
X Ray Diffraction 2.5971 2.6575 -- 124 2700 0.2583 0.3202 -- 98.0
X Ray Diffraction 2.6575 2.724 -- 119 2736 0.2505 0.3095 -- 96.0
X Ray Diffraction 2.724 2.7976 -- 154 2684 0.2505 0.3338 -- 97.0
X Ray Diffraction 2.7976 2.8799 -- 148 2656 0.2516 0.3162 -- 96.0
X Ray Diffraction 2.8799 2.9728 -- 176 2687 0.2348 0.2936 -- 96.0
X Ray Diffraction 2.9728 3.079 -- 163 2625 0.2238 0.3224 -- 96.0
X Ray Diffraction 3.079 3.2022 -- 141 2668 0.2183 0.2764 -- 96.0
X Ray Diffraction 3.2022 3.3479 -- 127 2686 0.2125 0.2804 -- 96.0
X Ray Diffraction 3.3479 3.5243 -- 147 2697 0.2112 0.2593 -- 96.0
X Ray Diffraction 3.5243 3.7449 -- 139 2703 0.1967 0.2649 -- 97.0
X Ray Diffraction 3.7449 4.0338 -- 158 2747 0.1831 0.2202 -- 99.0
X Ray Diffraction 4.0338 4.4392 -- 125 2806 0.1648 0.2062 -- 99.0
X Ray Diffraction 4.4392 5.0803 -- 156 2766 0.1651 0.2205 -- 100.0
X Ray Diffraction 5.0803 6.396 -- 165 2818 0.201 0.2909 -- 100.0
X Ray Diffraction 6.396 38.6768 -- 152 2832 0.1634 0.1786 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.058
f_plane_restr 0.007
f_angle_d 1.18
f_bond_d 0.01
f_dihedral_angle_d 17.023
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10132
Nucleic Acid Atoms 0
Heterogen Atoms 84
Solvent Atoms 213

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10.1_2155: ???)
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing