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 = 93.92 α = 90
b = 108.96 β = 90
c = 149.49 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2010-04-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 12.3.1 0.9795 ALS 12.3.1

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 91.2 0.042 -- -- 5.6 -- 171000 -- -3.0 28.337
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 99.9 0.496 -- 3.85 -- --

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 43.125 -- 2.35 -- 161679 7358 86.23 -- 0.1691 0.168 0.1909 --
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 -- 269 5124 0.2138 0.2329 -- 86.0
X Ray Diffraction 1.6586 1.6782 -- 271 5144 0.2101 0.2591 -- 88.0
X Ray Diffraction 1.6782 1.6986 -- 274 5200 0.2031 0.244 -- 89.0
X Ray Diffraction 1.6986 1.7201 -- 277 5270 0.1992 0.2502 -- 90.0
X Ray Diffraction 1.7201 1.7428 -- 282 5349 0.1897 0.235 -- 91.0
X Ray Diffraction 1.7428 1.7666 -- 279 5300 0.1829 0.2106 -- 91.0
X Ray Diffraction 1.7666 1.7919 -- 284 5394 0.178 0.2206 -- 92.0
X Ray Diffraction 1.7919 1.8186 -- 286 5449 0.1761 0.216 -- 92.0
X Ray Diffraction 1.8186 1.847 -- 285 5415 0.1767 0.2061 -- 92.0
X Ray Diffraction 1.847 1.8773 -- 276 5241 0.1727 0.2233 -- 89.0
X Ray Diffraction 1.8773 1.9097 -- 115 2181 0.178 0.2301 -- 77.0
X Ray Diffraction 1.9097 1.9444 -- 1 8 0.1339 0.1035 -- 19.0
X Ray Diffraction 1.9444 1.9818 -- 263 5003 0.1812 0.2226 -- 85.0
X Ray Diffraction 1.9818 2.0223 -- 219 5762 0.1705 0.1902 -- 96.0
X Ray Diffraction 2.0223 2.0662 -- 211 5796 0.1638 0.1843 -- 97.0
X Ray Diffraction 2.0662 2.1143 -- 233 5854 0.1623 0.1877 -- 98.0
X Ray Diffraction 2.1143 2.1672 -- 228 5829 0.1618 0.1881 -- 98.0
X Ray Diffraction 2.1672 2.2258 -- 262 5270 0.1688 0.2104 -- 89.0
X Ray Diffraction 2.2258 2.2913 -- 39 1107 0.1737 0.2276 -- 81.0
X Ray Diffraction 2.2913 2.3652 -- 224 5775 0.1565 0.1833 -- 96.0
X Ray Diffraction 2.3652 2.4497 -- 234 5877 0.1573 0.1935 -- 98.0
X Ray Diffraction 2.4497 2.5478 -- 245 5886 0.1572 0.1683 -- 98.0
X Ray Diffraction 2.5478 2.6637 -- 251 5896 0.1633 0.1732 -- 98.0
X Ray Diffraction 2.6637 2.8042 -- 256 5880 0.1707 0.1835 -- 98.0
X Ray Diffraction 2.8042 2.9798 -- 278 5873 0.1698 0.1978 -- 98.0
X Ray Diffraction 2.9798 3.2098 -- 292 5943 0.1721 0.1906 -- 99.0
X Ray Diffraction 3.2098 3.5327 -- 312 5875 0.1611 0.1731 -- 98.0
X Ray Diffraction 3.5327 4.0436 -- 299 5855 0.1645 0.1866 -- 97.0
X Ray Diffraction 4.0436 5.0932 -- 309 5944 0.139 0.1627 -- 98.0
X Ray Diffraction 5.0932 43.1402 -- 304 5821 0.1961 0.1964 -- 92.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.077
f_dihedral_angle_d 15.327
f_angle_d 1.348
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9280
Nucleic Acid Atoms 828
Heterogen Atoms 46
Solvent Atoms 1363

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