X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 291.0
Details 37.5% MPD/PEG1000/PEG3350 (MD), 0.1 M Amino Acids Mix (MD), 0.1 M MES pH6.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 32.78 α = 90
b = 107.8 β = 109.02
c = 40.6 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 PILATUS 6M-F -- 2015-06-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 1.03320 PETRA III, EMBL c/o DESY P13 (MX1)

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 38.38 97.6 -- -- -- 6.82 -- 46248 -- -- 19.64
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 1.54 95.5 -- -- 2.47 -- --

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 1.448 38.382 -- 1.38 -- 46245 2101 97.76 -- 0.1616 0.1602 0.191 --
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 1.4476 1.4812 -- 135 2831 0.2227 0.2565 -- 93.0
X Ray Diffraction 1.4812 1.5183 -- 136 2863 0.204 0.2322 -- 97.0
X Ray Diffraction 1.5183 1.5593 -- 139 2923 0.1993 0.2153 -- 96.0
X Ray Diffraction 1.5593 1.6052 -- 139 2906 0.1894 0.2274 -- 98.0
X Ray Diffraction 1.6052 1.657 -- 138 2915 0.1924 0.2609 -- 96.0
X Ray Diffraction 1.657 1.7163 -- 140 2945 0.1871 0.2104 -- 98.0
X Ray Diffraction 1.7163 1.785 -- 139 2907 0.1618 0.1993 -- 98.0
X Ray Diffraction 1.785 1.8662 -- 140 2942 0.1547 0.1797 -- 98.0
X Ray Diffraction 1.8662 1.9646 -- 140 2959 0.1512 0.1738 -- 98.0
X Ray Diffraction 1.9646 2.0877 -- 140 2936 0.145 0.1753 -- 98.0
X Ray Diffraction 2.0877 2.2488 -- 143 3011 0.1409 0.1685 -- 99.0
X Ray Diffraction 2.2488 2.4751 -- 141 2966 0.1469 0.1716 -- 99.0
X Ray Diffraction 2.4751 2.8332 -- 144 3012 0.154 0.1895 -- 99.0
X Ray Diffraction 2.8332 3.5691 -- 142 2994 0.1486 0.1855 -- 99.0
X Ray Diffraction 3.5691 38.395 -- 145 3034 0.1628 0.1894 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.008
f_dihedral_angle_d 20.66
f_bond_d 0.012
f_chiral_restr 0.101
f_angle_d 1.408
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2290
Nucleic Acid Atoms 0
Heterogen Atoms 37
Solvent Atoms 241

Software

Software
Software Name Purpose
XDS data reduction version: XDSapp 2.0
Aimless data scaling
PHASER phasing
PHENIX refinement version: (1.10.1_2155: ???)