X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 20% MEPEG 5000, 100 mM BisTris pH 6.5, 5% ethylene glycol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.05 α = 90
b = 47.94 β = 97.19
c = 174.26 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
PIXEL DECTRIS EIGER X 16M -- 2017-03-07
Diffraction Radiation
Monochromator Protocol
double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1.03 APS 23-ID-B

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
1.69 46.2 97.8 -- -- -- 6.9 -- 112827 -- -- --
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)
-- -- -- -- -- -- -- --

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
-- 1.687 46.196 -- 1.34 -- 112621 5650 97.74 -- 0.2242 0.2227 0.2526 --
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 1.6867 1.7059 -- 156 3425 0.4166 0.4186 0.0 92.0
X Ray Diffraction 1.7059 1.7259 -- 183 3434 0.4035 0.4263 0.0 96.0
X Ray Diffraction 1.7259 1.747 -- 172 3460 0.3758 0.4223 0.0 97.0
X Ray Diffraction 1.747 1.7691 -- 172 3546 0.3662 0.4228 0.0 96.0
X Ray Diffraction 1.7691 1.7924 -- 181 3479 0.3521 0.3186 0.0 96.0
X Ray Diffraction 1.7924 1.8169 -- 187 3505 0.3509 0.3283 0.0 97.0
X Ray Diffraction 1.8169 1.8429 -- 185 3512 0.326 0.3816 0.0 97.0
X Ray Diffraction 1.8429 1.8704 -- 210 3486 0.2926 0.325 0.0 97.0
X Ray Diffraction 1.8704 1.8996 -- 178 3530 0.2853 0.2989 0.0 97.0
X Ray Diffraction 1.8996 1.9308 -- 186 3499 0.2755 0.311 0.0 97.0
X Ray Diffraction 1.9308 1.964 -- 163 3572 0.2516 0.2891 0.0 97.0
X Ray Diffraction 1.964 1.9998 -- 181 3566 0.2517 0.2689 0.0 97.0
X Ray Diffraction 1.9998 2.0382 -- 179 3478 0.2529 0.2773 0.0 98.0
X Ray Diffraction 2.0382 2.0798 -- 187 3617 0.2426 0.3173 0.0 98.0
X Ray Diffraction 2.0798 2.1251 -- 214 3499 0.2444 0.2798 0.0 98.0
X Ray Diffraction 2.1251 2.1745 -- 210 3562 0.2436 0.2967 0.0 98.0
X Ray Diffraction 2.1745 2.2289 -- 171 3530 0.2377 0.2491 0.0 98.0
X Ray Diffraction 2.2289 2.2891 -- 191 3643 0.2366 0.2631 0.0 98.0
X Ray Diffraction 2.2891 2.3565 -- 179 3532 0.2422 0.2584 0.0 99.0
X Ray Diffraction 2.3565 2.4325 -- 157 3651 0.2454 0.2988 0.0 98.0
X Ray Diffraction 2.4325 2.5195 -- 201 3580 0.2438 0.2723 0.0 99.0
X Ray Diffraction 2.5195 2.6203 -- 210 3572 0.2457 0.2933 0.0 99.0
X Ray Diffraction 2.6203 2.7396 -- 200 3559 0.2448 0.2931 0.0 99.0
X Ray Diffraction 2.7396 2.884 -- 186 3645 0.238 0.2759 0.0 99.0
X Ray Diffraction 2.884 3.0647 -- 193 3641 0.2375 0.257 0.0 99.0
X Ray Diffraction 3.0647 3.3012 -- 172 3658 0.2286 0.2515 0.0 99.0
X Ray Diffraction 3.3012 3.6333 -- 202 3654 0.2102 0.2778 0.0 99.0
X Ray Diffraction 3.6333 4.1588 -- 203 3666 0.1938 0.2265 0.0 99.0
X Ray Diffraction 4.1588 5.2385 -- 200 3709 0.1574 0.1665 0.0 99.0
X Ray Diffraction 5.2385 46.2132 -- 241 3761 0.1949 0.2197 0.0 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 49.4195
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.006
f_chiral_restr 0.062
f_angle_d 0.838
f_dihedral_angle_d 3.307
f_plane_restr 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5952
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 404

Software

Software
Software Name Purpose
PHENIX refinement version: 1.11.1_2575
PDB_EXTRACT data extraction version: 3.22
XDS data reduction
XSCALE data scaling
Coot model building