X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 293.0
Details 0.1 M MES, 40% MPD, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.42 α = 90
b = 98.02 β = 90
c = 131.34 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 200
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2013-03-21
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-E 0.9795 APS 24-ID-E

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
2.26 78.6 98.3 -- -- -- -- 26032 25590 2.0 2.0 --
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)
2.26 2.38 100.0 -- -- -- -- --

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 2.264 78.554 -- 1.36 26032 25590 2000 98.17 -- 0.1718 0.1684 0.2102 RANDOM
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 2.2637 2.3204 -- 117 1375 0.2248 0.2585 -- 82.0
X Ray Diffraction 2.3204 2.3831 -- 135 1601 0.2063 0.2585 -- 94.0
X Ray Diffraction 2.3831 2.4532 -- 143 1687 0.198 0.2209 -- 100.0
X Ray Diffraction 2.4532 2.5324 -- 143 1683 0.1872 0.2656 -- 100.0
X Ray Diffraction 2.5324 2.6229 -- 144 1702 0.1898 0.2375 -- 100.0
X Ray Diffraction 2.6229 2.728 -- 146 1711 0.1954 0.2297 -- 100.0
X Ray Diffraction 2.728 2.8521 -- 142 1692 0.1871 0.2586 -- 100.0
X Ray Diffraction 2.8521 3.0025 -- 144 1688 0.1954 0.25 -- 100.0
X Ray Diffraction 3.0025 3.1906 -- 146 1724 0.1858 0.2289 -- 100.0
X Ray Diffraction 3.1906 3.437 -- 145 1710 0.1645 0.2319 -- 100.0
X Ray Diffraction 3.437 3.7828 -- 146 1713 0.1588 0.1783 -- 100.0
X Ray Diffraction 3.7828 4.3302 -- 146 1729 0.1435 0.1782 -- 100.0
X Ray Diffraction 4.3302 5.4554 -- 149 1764 0.1378 0.1832 -- 100.0
X Ray Diffraction 5.4554 78.6013 -- 154 1811 0.1646 0.1877 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_chiral_restr 0.145
f_dihedral_angle_d 19.815
f_angle_d 1.433
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2924
Nucleic Acid Atoms 592
Heterogen Atoms 52
Solvent Atoms 199

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHASER model building
ADSC version: Quantum data collection