X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 0.1M TRIS-HCL PH 7.5, 15% PEG 4000, 0.8M SODIUM FORMATE, VAPOR DIFFUSION, HANGING DROP, 285K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.37 α = 104.38
b = 96.77 β = 96.11
c = 109.69 γ = 90.03
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL (PILATUS 6M) DECTRIS -- 2012-10-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I02 -- DIAMOND I02

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
3.24 39.52 98.5 0.05 -- -- 2.9 -- 47940 -- 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)
3.24 3.35 97.7 0.33 -- 2.3 2.9 --

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 3.24 29.939 -- 1.97 -- 47592 2374 97.89 -- 0.231 0.2292 0.2638 --
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 3.24 3.3061 -- 130 2426 0.292 0.375 -- 90.0
X Ray Diffraction 3.3061 3.3779 -- 130 2596 0.2925 0.3404 -- 95.0
X Ray Diffraction 3.3779 3.4564 -- 134 2673 0.2787 0.3291 -- 98.0
X Ray Diffraction 3.4564 3.5427 -- 143 2673 0.2683 0.3528 -- 98.0
X Ray Diffraction 3.5427 3.6383 -- 136 2680 0.2609 0.2848 -- 98.0
X Ray Diffraction 3.6383 3.7452 -- 145 2652 0.2588 0.2959 -- 98.0
X Ray Diffraction 3.7452 3.8658 -- 155 2697 0.2548 0.3187 -- 98.0
X Ray Diffraction 3.8658 4.0037 -- 140 2631 0.2596 0.2913 -- 99.0
X Ray Diffraction 4.0037 4.1636 -- 137 2669 0.2523 0.3064 -- 98.0
X Ray Diffraction 4.1636 4.3525 -- 137 2681 0.2401 0.2691 -- 99.0
X Ray Diffraction 4.3525 4.5812 -- 125 2722 0.2277 0.2974 -- 99.0
X Ray Diffraction 4.5812 4.8671 -- 136 2688 0.2243 0.2572 -- 99.0
X Ray Diffraction 4.8671 5.2411 -- 138 2668 0.2168 0.2268 -- 99.0
X Ray Diffraction 5.2411 5.7651 -- 158 2694 0.2348 0.2756 -- 99.0
X Ray Diffraction 5.7651 6.5916 -- 147 2684 0.2382 0.2569 -- 99.0
X Ray Diffraction 6.5916 8.2755 -- 137 2708 0.2079 0.2515 -- 99.0
X Ray Diffraction 8.2755 29.9403 -- 146 2676 0.1819 0.1947 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.024
f_dihedral_angle_d 15.744
f_angle_d 0.616
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 18669
Nucleic Acid Atoms 756
Heterogen Atoms 8
Solvent Atoms 0

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHENIX PHASER-MR Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHENIX version: PHASER-MR model building