X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 277.0
Details PEG 20K, KSCN, Mg Acetate, Tris-Acetate, Glycerol, Spermidine

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 436.64 α = 90
b = 287.69 β = 98.98
c = 304.39 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 -- 2013-07-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 1.0 SOLEIL PROXIMA 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
2.8 300.66 99.5 0.252 -- -- 11.25 -- 1806020 -- -3.0 60.48
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)
2.8 2.9 95.1 2.204 -- 1.2 -- --

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 2.801 300.66 -- 0.0 -- 1805175 33999 99.57 -- 0.2091 0.2084 0.2458 --
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 2.801 2.8328 -- 992 51680 0.3655 0.3953 -- 87.0
X Ray Diffraction 2.8328 2.8661 -- 1136 59183 0.3404 0.3705 -- 100.0
X Ray Diffraction 2.8661 2.9011 -- 1136 59172 0.3248 0.3605 -- 100.0
X Ray Diffraction 2.9011 2.9378 -- 1135 59152 0.3005 0.3319 -- 100.0
X Ray Diffraction 2.9378 2.9765 -- 1134 59042 0.2897 0.3407 -- 100.0
X Ray Diffraction 2.9765 3.0173 -- 1137 59241 0.2668 0.3196 -- 100.0
X Ray Diffraction 3.0173 3.0604 -- 1138 59280 0.2553 0.3092 -- 100.0
X Ray Diffraction 3.0604 3.1061 -- 1134 59055 0.2408 0.2868 -- 100.0
X Ray Diffraction 3.1061 3.1546 -- 1134 59136 0.2321 0.2766 -- 100.0
X Ray Diffraction 3.1546 3.2063 -- 1138 59305 0.221 0.2768 -- 100.0
X Ray Diffraction 3.2063 3.2616 -- 1136 59141 0.2172 0.2626 -- 100.0
X Ray Diffraction 3.2616 3.3209 -- 1136 59186 0.2153 0.2625 -- 100.0
X Ray Diffraction 3.3209 3.3848 -- 1137 59241 0.2105 0.261 -- 100.0
X Ray Diffraction 3.3848 3.4539 -- 1137 59229 0.2048 0.2586 -- 100.0
X Ray Diffraction 3.4539 3.529 -- 1135 59152 0.2007 0.2466 -- 100.0
X Ray Diffraction 3.529 3.6111 -- 1138 59272 0.2013 0.2491 -- 100.0
X Ray Diffraction 3.6111 3.7014 -- 1138 59266 0.1943 0.2324 -- 100.0
X Ray Diffraction 3.7014 3.8015 -- 1137 59293 0.1868 0.2349 -- 100.0
X Ray Diffraction 3.8015 3.9134 -- 1136 59178 0.1794 0.2159 -- 100.0
X Ray Diffraction 3.9134 4.0397 -- 1139 59276 0.1777 0.2181 -- 100.0
X Ray Diffraction 4.0397 4.1841 -- 1138 59307 0.1766 0.2171 -- 100.0
X Ray Diffraction 4.1841 4.3516 -- 1139 59349 0.1844 0.2225 -- 100.0
X Ray Diffraction 4.3516 4.5497 -- 1139 59321 0.1817 0.2197 -- 100.0
X Ray Diffraction 4.5497 4.7896 -- 1138 59296 0.1815 0.2137 -- 100.0
X Ray Diffraction 4.7896 5.0897 -- 1139 59338 0.1815 0.2154 -- 100.0
X Ray Diffraction 5.0897 5.4827 -- 1140 59377 0.1841 0.2122 -- 100.0
X Ray Diffraction 5.4827 6.0345 -- 1140 59424 0.1945 0.2236 -- 100.0
X Ray Diffraction 6.0345 6.9078 -- 1143 59545 0.2079 0.2491 -- 100.0
X Ray Diffraction 6.9078 8.7032 -- 1146 59705 0.2145 0.2475 -- 100.0
X Ray Diffraction 8.7032 302.409 -- 1154 60034 0.234 0.2443 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 57.2055
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.012
f_chiral_restr 0.067
f_angle_d 1.684
f_plane_restr 0.008
f_dihedral_angle_d 18.523
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 179689
Nucleic Acid Atoms 222116
Heterogen Atoms 11001
Solvent Atoms 0

Software

Software
Software Name Purpose
XDS data reduction
PHENIX refinement version: (phenix.refine: dev_1702)
PDB_EXTRACT data extraction version: 3.14
XSCALE data scaling
XSCALE data reduction