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 100 mM MES, 38% PEG 8000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.75 α = 90
b = 74.77 β = 90
c = 77.86 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2014-03-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID 1.000 APS 17-ID

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
1.45 53.93 99.8 0.043 -- -- 6.3 -- 39791 -- -- 14.44
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)
1.45 1.455 100.0 0.36 -- -- 6.4 --

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 1.45 53.931 -- 1.37 -- 39728 1999 99.66 -- 0.1601 0.1596 0.1687 --
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 1.45 1.4863 -- 140 2610 0.1774 0.1857 -- 99.0
X Ray Diffraction 1.4863 1.5265 -- 152 2668 0.1604 0.1906 -- 99.0
X Ray Diffraction 1.5265 1.5714 -- 152 2647 0.1562 0.1939 -- 100.0
X Ray Diffraction 1.5714 1.6221 -- 144 2638 0.1516 0.1565 -- 100.0
X Ray Diffraction 1.6221 1.6801 -- 127 2660 0.1548 0.2109 -- 100.0
X Ray Diffraction 1.6801 1.7474 -- 141 2675 0.1532 0.1912 -- 100.0
X Ray Diffraction 1.7474 1.8269 -- 145 2687 0.156 0.1856 -- 100.0
X Ray Diffraction 1.8269 1.9232 -- 131 2673 0.161 0.1836 -- 100.0
X Ray Diffraction 1.9232 2.0437 -- 144 2694 0.1663 0.1777 -- 100.0
X Ray Diffraction 2.0437 2.2015 -- 150 2686 0.1579 0.158 -- 100.0
X Ray Diffraction 2.2015 2.423 -- 148 2693 0.1609 0.1738 -- 100.0
X Ray Diffraction 2.423 2.7737 -- 142 2739 0.1735 0.1894 -- 100.0
X Ray Diffraction 2.7737 3.4944 -- 127 2779 0.1696 0.1781 -- 100.0
X Ray Diffraction 3.4944 53.9684 -- 156 2880 0.1461 0.1334 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.9841
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.235
f_dihedral_angle_d 12.99
f_chiral_restr 0.055
f_bond_d 0.006
f_plane_restr 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1662
Nucleic Acid Atoms 0
Heterogen Atoms 39
Solvent Atoms 242

Software

Software
Software Name Purpose
Aimless data scaling
PHASER phasing
PHENIX refinement
PDB_EXTRACT data extraction version: 3.20
XDS data reduction