X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.8
Details 21 % (W/V) PEG2000, 100 MM MGSO4, 3 % (V/V) TERT-BUOH, 10 % (V/V) GLYCEROL, pH 6.8

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.17 α = 90
b = 71.17 β = 90
c = 583.23 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 -- 2011-06-18
Diffraction Radiation
Monochromator Protocol
LN2 COOLED FIXED-EXIT SI(111) MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA -- SLS X06SA

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
2.5 72.9 100.0 0.07 -- -- 14.2 -- 54047 -- -3.0 66.73
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)
2.5 2.59 100.0 1.34 -- 2.02 14.2 --

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 2.5 72.904 -- 1.35 -- 54035 2702 99.98 -- 0.1964 0.1935 0.2519 --
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 2.5 2.5455 -- 141 2659 0.2941 0.366 -- 100.0
X Ray Diffraction 2.5455 2.5944 -- 137 2616 0.2695 0.3464 -- 100.0
X Ray Diffraction 2.5944 2.6474 -- 141 2687 0.2588 0.334 -- 100.0
X Ray Diffraction 2.6474 2.705 -- 136 2582 0.232 0.2903 -- 100.0
X Ray Diffraction 2.705 2.7679 -- 138 2629 0.2216 0.2918 -- 100.0
X Ray Diffraction 2.7679 2.8371 -- 140 2673 0.2107 0.2808 -- 100.0
X Ray Diffraction 2.8371 2.9138 -- 138 2612 0.2173 0.2718 -- 100.0
X Ray Diffraction 2.9138 2.9996 -- 141 2682 0.2143 0.2803 -- 100.0
X Ray Diffraction 2.9996 3.0964 -- 141 2685 0.2113 0.2905 -- 100.0
X Ray Diffraction 3.0964 3.207 -- 138 2635 0.2161 0.3282 -- 100.0
X Ray Diffraction 3.207 3.3354 -- 142 2680 0.2054 0.2675 -- 100.0
X Ray Diffraction 3.3354 3.4872 -- 140 2667 0.1995 0.2673 -- 100.0
X Ray Diffraction 3.4872 3.6711 -- 142 2699 0.1949 0.265 -- 100.0
X Ray Diffraction 3.6711 3.9011 -- 143 2718 0.1866 0.234 -- 100.0
X Ray Diffraction 3.9011 4.2023 -- 145 2742 0.1743 0.2412 -- 100.0
X Ray Diffraction 4.2023 4.6251 -- 143 2706 0.16 0.1951 -- 100.0
X Ray Diffraction 4.6251 5.2942 -- 146 2774 0.1703 0.2554 -- 100.0
X Ray Diffraction 5.2942 6.6694 -- 148 2827 0.209 0.3049 -- 100.0
X Ray Diffraction 6.6694 72.9347 -- 162 3060 0.1883 0.2043 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.143
f_plane_restr 0.005
f_bond_d 0.011
f_chiral_restr 0.044
f_dihedral_angle_d 15.528
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7674
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 192

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction
XSCALE data scaling
PHASER phasing