X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9.5
Temperature 293.0
Details 0.1M MgCl2, 0.1M CHES pH 9.5, 25% PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.25 α = 90
b = 83.91 β = 90
c = 107.08 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 -- 2017-10-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 1.28260 APS 24-ID-C

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
2.1 40 97.8 -- -- -- 3.4 -- 34114 -- -- --
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)
2.1 2.22 93.0 -- -- 2.26 -- --

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 2.1 39.063 -- 1.93 -- 34037 1666 89.96 -- 0.2522 0.2512 0.2703 --
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 2.1 2.1618 -- 140 2792 0.3388 0.346 -- 94.0
X Ray Diffraction 2.1618 2.2316 -- 147 2817 0.3186 0.344 -- 94.0
X Ray Diffraction 2.2316 2.3113 -- 152 2848 0.2944 0.2988 -- 94.0
X Ray Diffraction 2.3113 2.4038 -- 146 2744 0.2877 0.3339 -- 93.0
X Ray Diffraction 2.4038 2.5132 -- 135 2773 0.283 0.3083 -- 92.0
X Ray Diffraction 2.5132 2.6457 -- 119 2626 0.2807 0.3139 -- 88.0
X Ray Diffraction 2.6457 2.8114 -- 143 2764 0.2912 0.3098 -- 92.0
X Ray Diffraction 2.8114 3.0284 -- 131 2694 0.2833 0.2569 -- 90.0
X Ray Diffraction 3.0284 3.333 -- 128 2617 0.2749 0.3083 -- 87.0
X Ray Diffraction 3.333 3.815 -- 144 2459 0.2546 0.2977 -- 82.0
X Ray Diffraction 3.815 4.8051 -- 146 2647 0.198 0.188 -- 89.0
X Ray Diffraction 4.8051 39.07 -- 135 2590 0.2242 0.2753 -- 86.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.008
f_bond_d 0.008
f_dihedral_angle_d 13.835
f_chiral_restr 0.045
f_angle_d 1.07
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2586
Nucleic Acid Atoms 0
Heterogen Atoms 15
Solvent Atoms 99

Software

Software
Software Name Purpose
PHENIX refinement version: (1.13_2998: ???)
XDS data reduction
Aimless data scaling
PHASER phasing