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 0.1 M Bis-Tris propane pH 6.5, 19% (w/v) PEG 3350, 0.05 M MgCl2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 100.91 α = 90
b = 64.57 β = 113.07
c = 128.64 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2015-11-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 0.97625 ESRF ID29

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
1.9 46.42 99.4 0.042 -- -- 4.2 -- 59758 -- -- 26.0
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)
1.9 1.94 99.2 0.421 -- -- 4.3 --

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 1.9 46.418 -- 0.01 -- 59758 5655 99.3 -- 0.1891 0.1871 0.229 --
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 1.9 1.9216 -- 162 3826 0.2697 0.3018 0.0 99.0
X Ray Diffraction 1.9216 1.9442 -- 196 3655 0.2641 0.3032 0.0 99.0
X Ray Diffraction 1.9442 1.9679 -- 174 3671 0.2684 0.2967 0.0 99.0
X Ray Diffraction 1.9679 1.9928 -- 200 3762 0.253 0.3313 0.0 99.0
X Ray Diffraction 1.9928 2.019 -- 231 3711 0.2354 0.2702 0.0 99.0
X Ray Diffraction 2.019 2.0467 -- 197 3607 0.2379 0.2609 0.0 99.0
X Ray Diffraction 2.0467 2.0759 -- 176 3781 0.2303 0.2572 0.0 99.0
X Ray Diffraction 2.0759 2.1069 -- 192 3664 0.226 0.2749 0.0 99.0
X Ray Diffraction 2.1069 2.1399 -- 180 3757 0.2263 0.2773 0.0 99.0
X Ray Diffraction 2.1399 2.1749 -- 233 3562 0.2293 0.2791 0.0 99.0
X Ray Diffraction 2.1749 2.2124 -- 177 3753 0.2142 0.2413 0.0 99.0
X Ray Diffraction 2.2124 2.2527 -- 177 3724 0.2035 0.2362 0.0 100.0
X Ray Diffraction 2.2527 2.296 -- 209 3694 0.1946 0.2461 0.0 100.0
X Ray Diffraction 2.296 2.3429 -- 154 3712 0.193 0.2803 0.0 99.0
X Ray Diffraction 2.3429 2.3938 -- 208 3765 0.2058 0.255 0.0 99.0
X Ray Diffraction 2.3938 2.4495 -- 172 3643 0.1952 0.2638 0.0 100.0
X Ray Diffraction 2.4495 2.5107 -- 218 3750 0.19 0.2389 0.0 100.0
X Ray Diffraction 2.5107 2.5786 -- 149 3783 0.197 0.2375 0.0 100.0
X Ray Diffraction 2.5786 2.6545 -- 169 3689 0.2003 0.2153 0.0 99.0
X Ray Diffraction 2.6545 2.7402 -- 180 3747 0.1979 0.2424 0.0 99.0
X Ray Diffraction 2.7402 2.8381 -- 215 3612 0.2075 0.258 0.0 99.0
X Ray Diffraction 2.8381 2.9517 -- 138 3805 0.2152 0.289 0.0 100.0
X Ray Diffraction 2.9517 3.086 -- 202 3674 0.2074 0.2604 0.0 99.0
X Ray Diffraction 3.086 3.2487 -- 195 3711 0.1887 0.2403 0.0 99.0
X Ray Diffraction 3.2487 3.4521 -- 206 3689 0.1835 0.222 0.0 99.0
X Ray Diffraction 3.4521 3.7186 -- 220 3665 0.1699 0.2166 0.0 99.0
X Ray Diffraction 3.7186 4.0926 -- 154 3727 0.1555 0.1898 0.0 99.0
X Ray Diffraction 4.0926 4.6843 -- 208 3711 0.1397 0.1904 0.0 100.0
X Ray Diffraction 4.6843 5.8998 -- 179 3770 0.1503 0.1559 0.0 100.0
X Ray Diffraction 5.8998 46.4321 -- 184 3689 0.1555 0.1774 0.0 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.4238
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.368
f_bond_d 0.016
f_angle_d 1.449
f_chiral_restr 0.076
f_plane_restr 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6138
Nucleic Acid Atoms 0
Heterogen Atoms 132
Solvent Atoms 418

Software

Software
Software Name Purpose
PHENIX refinement
EDNA data collection
XDS data reduction
Aimless data scaling version: 0.5.1
PHASER phasing
PDB_EXTRACT data extraction version: 3.22