X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 291.0
Details 0.8-1.0 M lithium sulfate, 0.075-0.2 M potassium iodide, 0.05-0.2 M trisodium citrate, pH 5-6

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 135.47 α = 90
b = 135.47 β = 90
c = 179.27 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2015-01-16
Diffraction Radiation
Monochromator Protocol
double crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.2 1.000 ALS 8.2.2

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
2.3 179 99.9 0.049 -- -- 5.6 -- 82731 -- -- 43.65
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)
2.298 2.31 -- 0.556 -- -- -- --

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 2.298 98.168 -- 1.34 -- 82655 4139 99.84 -- 0.1904 0.1883 0.2287 --
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 2.2976 2.3237 -- 138 2589 0.2596 0.3096 0.0 100.0
X Ray Diffraction 2.3237 2.3511 -- 132 2623 0.2541 0.2947 0.0 100.0
X Ray Diffraction 2.3511 2.3797 -- 131 2636 0.2345 0.2962 0.0 100.0
X Ray Diffraction 2.3797 2.4099 -- 123 2616 0.2326 0.283 0.0 100.0
X Ray Diffraction 2.4099 2.4416 -- 127 2637 0.2307 0.2795 0.0 100.0
X Ray Diffraction 2.4416 2.475 -- 138 2595 0.2273 0.2764 0.0 100.0
X Ray Diffraction 2.475 2.5104 -- 128 2627 0.2366 0.272 0.0 100.0
X Ray Diffraction 2.5104 2.5479 -- 141 2596 0.2303 0.316 0.0 100.0
X Ray Diffraction 2.5479 2.5877 -- 149 2621 0.2301 0.2863 0.0 100.0
X Ray Diffraction 2.5877 2.6301 -- 153 2598 0.2303 0.3145 0.0 100.0
X Ray Diffraction 2.6301 2.6754 -- 144 2615 0.2236 0.3087 0.0 100.0
X Ray Diffraction 2.6754 2.7241 -- 150 2593 0.218 0.2767 0.0 100.0
X Ray Diffraction 2.7241 2.7765 -- 141 2619 0.22 0.2478 0.0 100.0
X Ray Diffraction 2.7765 2.8332 -- 152 2586 0.207 0.2989 0.0 100.0
X Ray Diffraction 2.8332 2.8948 -- 131 2651 0.2106 0.2664 0.0 100.0
X Ray Diffraction 2.8948 2.9621 -- 113 2618 0.2168 0.2876 0.0 100.0
X Ray Diffraction 2.9621 3.0362 -- 145 2646 0.2243 0.2781 0.0 100.0
X Ray Diffraction 3.0362 3.1183 -- 128 2601 0.2315 0.275 0.0 100.0
X Ray Diffraction 3.1183 3.2101 -- 144 2635 0.2242 0.2938 0.0 100.0
X Ray Diffraction 3.2101 3.3137 -- 141 2621 0.2131 0.2884 0.0 100.0
X Ray Diffraction 3.3137 3.4321 -- 136 2561 0.202 0.2363 0.0 100.0
X Ray Diffraction 3.4321 3.5696 -- 142 2669 0.1916 0.2544 0.0 100.0
X Ray Diffraction 3.5696 3.732 -- 145 2601 0.1861 0.2248 0.0 100.0
X Ray Diffraction 3.732 3.9288 -- 149 2609 0.1656 0.1978 0.0 100.0
X Ray Diffraction 3.9288 4.1749 -- 141 2604 0.1522 0.1859 0.0 99.0
X Ray Diffraction 4.1749 4.4973 -- 123 2624 0.1423 0.1591 0.0 100.0
X Ray Diffraction 4.4973 4.9498 -- 132 2616 0.1409 0.1534 0.0 100.0
X Ray Diffraction 4.9498 5.666 -- 139 2623 0.1609 0.19 0.0 99.0
X Ray Diffraction 5.666 7.1383 -- 131 2651 0.1867 0.2017 0.0 100.0
X Ray Diffraction 7.1383 98.2576 -- 152 2635 0.1661 0.1792 0.0 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 65.9348
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.005
f_plane_restr 0.004
f_angle_d 0.683
f_dihedral_angle_d 11.302
f_chiral_restr 0.044
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8863
Nucleic Acid Atoms 231
Heterogen Atoms 26
Solvent Atoms 205

Software

Software
Software Name Purpose
Aimless data scaling
PHENIX refinement version: 1.10_2155
PDB_EXTRACT data extraction version: 3.22
XDS data reduction
PHASER phasing