X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.8
Temperature 290.0
Details 48%-53% Saturated Ammonium Sulfate, 2.5% MPD, 10mM MgSO4, 100mM MES (pH 5.8), VAPOR DIFFUSION, HANGING DROP, temperature 290K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.74 α = 90
b = 109.51 β = 90
c = 149.8 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2009-10-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 0.97121 APS 22-BM

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
1.64 50 88.1 0.055 -- -- 5.1 -- 166080 -- -3.0 26.512
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)
1.64 1.74 98.3 0.457 -- 3.63 -- --

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
FOURIER SYNTHESIS 1.64 46.87 -- 2.35 -- 158215 7159 83.97 -- 0.1717 0.1708 0.1922 --
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 1.64 1.6586 -- 271 5152 0.2243 0.2475 -- 87.0
X Ray Diffraction 1.6586 1.6782 -- 268 5095 0.2106 0.2639 -- 87.0
X Ray Diffraction 1.6782 1.6986 -- 275 5213 0.2052 0.2279 -- 89.0
X Ray Diffraction 1.6986 1.7201 -- 276 5248 0.1924 0.2089 -- 89.0
X Ray Diffraction 1.7201 1.7428 -- 278 5297 0.1945 0.2108 -- 89.0
X Ray Diffraction 1.7428 1.7666 -- 282 5354 0.1849 0.2185 -- 90.0
X Ray Diffraction 1.7666 1.7919 -- 283 5379 0.1821 0.2286 -- 91.0
X Ray Diffraction 1.7919 1.8186 -- 286 5419 0.1768 0.2387 -- 92.0
X Ray Diffraction 1.8186 1.847 -- 284 5394 0.178 0.2104 -- 91.0
X Ray Diffraction 1.847 1.8773 -- 282 5369 0.1757 0.2336 -- 90.0
X Ray Diffraction 1.8773 1.9097 -- 96 1810 0.1697 0.2218 -- 71.0
X Ray Diffraction 1.9097 1.9444 -- 1 27 0.2277 0.1272 -- 13.0
X Ray Diffraction 1.9444 1.9818 -- 267 5048 0.1764 0.2057 -- 85.0
X Ray Diffraction 1.9818 2.0223 -- 188 5708 0.1696 0.2007 -- 95.0
X Ray Diffraction 2.0223 2.0663 -- 202 5756 0.1604 0.1766 -- 95.0
X Ray Diffraction 2.0663 2.1143 -- 230 5694 0.1609 0.1873 -- 95.0
X Ray Diffraction 2.1143 2.1672 -- 226 5796 0.156 0.1667 -- 96.0
X Ray Diffraction 2.1672 2.2258 -- 231 5044 0.1572 0.1848 -- 88.0
X Ray Diffraction 2.2258 2.2913 -- 43 1108 0.159 0.1592 -- 73.0
X Ray Diffraction 2.2913 2.3652 -- 221 5709 0.157 0.1932 -- 95.0
X Ray Diffraction 2.3652 2.4498 -- 231 5786 0.1578 0.1783 -- 96.0
X Ray Diffraction 2.4498 2.5478 -- 247 5740 0.1596 0.1767 -- 95.0
X Ray Diffraction 2.5478 2.6638 -- 242 5765 0.1655 0.1857 -- 95.0
X Ray Diffraction 2.6638 2.8042 -- 247 5705 0.1726 0.1782 -- 95.0
X Ray Diffraction 2.8042 2.9799 -- 264 5695 0.1769 0.1894 -- 95.0
X Ray Diffraction 2.9799 3.2099 -- 283 5704 0.1759 0.2052 -- 94.0
X Ray Diffraction 3.2099 3.5328 -- 297 5602 0.1629 0.1724 -- 93.0
X Ray Diffraction 3.5328 4.0438 -- 280 5393 0.1734 0.1912 -- 89.0
X Ray Diffraction 4.0438 5.0938 -- 287 5580 0.1453 0.155 -- 91.0
X Ray Diffraction 5.0938 46.8891 -- 291 5466 0.1996 0.2133 -- 86.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.076
f_dihedral_angle_d 15.579
f_angle_d 1.355
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9046
Nucleic Acid Atoms 832
Heterogen Atoms 73
Solvent Atoms 1364

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHENIX (phenix.refine: dev_1026) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement
Xscale data reduction