X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 298.0
Details 100 mM HEPES pH 7.0-7.5, 20-22% w/v PEG 3350, and 200 mM MgCl2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.37 α = 90
b = 66.37 β = 90
c = 145.06 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M-F -- 2017-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.97918 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
1.86 60.39 99.2 0.057 -- -- 4.2 -- 27947 -- -- --
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)
1.86 1.9 94.4 1.882 -- -- 4.2 --

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 1.86 60.355 -- 1.35 -- 27824 1363 99.05 -- 0.2165 0.2156 0.2346 --
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 1.86 1.9265 -- 133 2607 0.3496 0.3696 0.0 100.0
X Ray Diffraction 1.9265 2.0036 -- 139 2609 0.3135 0.3351 0.0 100.0
X Ray Diffraction 2.0036 2.0948 -- 162 2581 0.2693 0.2914 0.0 100.0
X Ray Diffraction 2.0948 2.2053 -- 137 2618 0.2609 0.2603 0.0 100.0
X Ray Diffraction 2.2053 2.3434 -- 128 2640 0.2375 0.2656 0.0 100.0
X Ray Diffraction 2.3434 2.5244 -- 129 2642 0.2257 0.2348 0.0 100.0
X Ray Diffraction 2.5244 2.7784 -- 125 2654 0.2357 0.267 0.0 99.0
X Ray Diffraction 2.7784 3.1804 -- 138 2646 0.2242 0.2532 0.0 99.0
X Ray Diffraction 3.1804 4.0069 -- 133 2683 0.1906 0.1786 0.0 98.0
X Ray Diffraction 4.0069 60.3869 -- 139 2781 0.1931 0.2283 0.0 96.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 54.4529
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_bond_d 0.003
f_dihedral_angle_d 16.113
f_angle_d 0.551
f_chiral_restr 0.042
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1972
Nucleic Acid Atoms 0
Heterogen Atoms 145
Solvent Atoms 180

Software

Software
Software Name Purpose
Aimless data scaling version: 0.5.23
PHASER phasing version: 2.8.0
PHENIX refinement version: 1.12_2829
PDB_EXTRACT data extraction version: 3.24
XDS data reduction version: May 1, 2016