X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.4
Temperature 293.0
Details 20% PEG 4000, 0.1 M trisodium citrate, 20% isopropanol, pH 5.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 136.77 α = 90
b = 136.77 β = 90
c = 57.99 γ = 120
Symmetry
Space Group P 63

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08B1-1 1.28280 CLSI 08B1-1

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
2.15 44.23 98.8 -- -- -- -- 33477 33472 2.0 2.0 --

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
SAD 2.15 44.229 -- 1.36 33477 33472 1996 98.73 -- 0.2016 0.1998 0.231 --
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 2.15 2.2039 -- 140 2209 0.2906 0.2932 -- 99.0
X Ray Diffraction 2.2039 2.2635 -- 141 2237 0.2808 0.3052 -- 98.0
X Ray Diffraction 2.2635 2.3301 -- 141 2213 0.2732 0.3445 -- 98.0
X Ray Diffraction 2.3301 2.4053 -- 142 2243 0.27 0.3063 -- 99.0
X Ray Diffraction 2.4053 2.4913 -- 144 2244 0.2718 0.285 -- 99.0
X Ray Diffraction 2.4913 2.591 -- 140 2213 0.2568 0.3122 -- 99.0
X Ray Diffraction 2.591 2.7089 -- 140 2237 0.245 0.3023 -- 99.0
X Ray Diffraction 2.7089 2.8517 -- 144 2259 0.2402 0.277 -- 99.0
X Ray Diffraction 2.8517 3.0303 -- 141 2262 0.235 0.28 -- 99.0
X Ray Diffraction 3.0303 3.2642 -- 144 2248 0.2268 0.2293 -- 99.0
X Ray Diffraction 3.2642 3.5926 -- 149 2264 0.1972 0.2347 -- 99.0
X Ray Diffraction 3.5926 4.1121 -- 145 2245 0.1715 0.2049 -- 98.0
X Ray Diffraction 4.1121 5.1796 -- 143 2273 0.1525 0.1895 -- 99.0
X Ray Diffraction 5.1796 44.2384 -- 142 2329 0.1711 0.1841 -- 98.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 10.722
f_chiral_restr 0.02
f_plane_restr 0.002
f_bond_d 0.002
f_angle_d 0.528
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3015
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 176

Software

Software
Software Name Purpose
MxDC data collection
SOLVE phasing
PHENIX refinement version: 1.9_1692
XDS data reduction
SCALA data scaling