X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details protein in 20 mM Tris pH 7.5, 150 mM NaCl, 50 mM KCl and 50 mM MgCl2 well solution: 0.25 M ammonium sulfate, 25 % PEG 3,350 and 0.1 M HEPES pH 7.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.08 α = 90
b = 130.08 β = 90
c = 195.95 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2016-02-09
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F

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
2.14 50 99.8 0.068 -- -- 4.7 -- 48115 -- -- --
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)
2.141 42.34 99.8 0.279 -- 4.1 4.7 --

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 2.141 42.335 -- 1.35 -- 48097 2409 99.5 -- 0.1909 0.1891 0.2247 --
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 2.1413 2.185 -- 133 2469 0.2098 0.2573 -- 92.0
X Ray Diffraction 2.185 2.2325 -- 140 2671 0.2009 0.2442 -- 100.0
X Ray Diffraction 2.2325 2.2845 -- 140 2646 0.1892 0.2192 -- 100.0
X Ray Diffraction 2.2845 2.3416 -- 140 2662 0.1849 0.2573 -- 100.0
X Ray Diffraction 2.3416 2.4049 -- 141 2683 0.1876 0.2396 -- 100.0
X Ray Diffraction 2.4049 2.4756 -- 140 2657 0.1864 0.2076 -- 100.0
X Ray Diffraction 2.4756 2.5555 -- 142 2687 0.1787 0.2162 -- 100.0
X Ray Diffraction 2.5555 2.6469 -- 141 2685 0.1837 0.2234 -- 100.0
X Ray Diffraction 2.6469 2.7528 -- 140 2660 0.1929 0.2388 -- 100.0
X Ray Diffraction 2.7528 2.8781 -- 142 2694 0.198 0.25 -- 100.0
X Ray Diffraction 2.8781 3.0298 -- 142 2684 0.2111 0.2278 -- 100.0
X Ray Diffraction 3.0298 3.2195 -- 142 2721 0.2043 0.252 -- 100.0
X Ray Diffraction 3.2195 3.468 -- 142 2684 0.1965 0.2427 -- 100.0
X Ray Diffraction 3.468 3.8168 -- 143 2728 0.1962 0.2683 -- 100.0
X Ray Diffraction 3.8168 4.3686 -- 145 2732 0.17 0.2115 -- 100.0
X Ray Diffraction 4.3686 5.5021 -- 144 2750 0.1713 0.2014 -- 100.0
X Ray Diffraction 5.5021 42.3435 -- 152 2875 0.194 0.1881 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.03
f_angle_d 1.134
f_bond_d 0.009
f_chiral_restr 0.047
f_plane_restr 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4522
Nucleic Acid Atoms 0
Heterogen Atoms 78
Solvent Atoms 199

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
HKL-3000 data reduction
HKL-3000 data scaling
HKL-3000 phasing