X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9
Temperature 293.0
Details 12% PEG 3350, 75mM Phenol, 12% Isopropanol, 100mM Tris

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 63.1 α = 90
b = 107.55 β = 107.39
c = 68.89 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 80
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2014-07-04
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.979450 SSRL BL11-1

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
2.95 38.98 98.3 0.098 0.089 -- 3.8 -- 18175 -- -- --
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)
2.95 3.13 95.7 0.608 0.55 1.8 3.6 --

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 2.954 38.983 -- 1.36 -- 18151 916 98.11 -- 0.2243 0.2223 0.2611 --
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 2.9537 3.1094 -- 134 2362 0.2884 0.3301 -- 95.0
X Ray Diffraction 3.1094 3.3041 -- 134 2474 0.2741 0.3732 -- 99.0
X Ray Diffraction 3.3041 3.559 -- 118 2495 0.2571 0.3149 -- 99.0
X Ray Diffraction 3.559 3.9169 -- 115 2444 0.2358 0.2833 -- 98.0
X Ray Diffraction 3.9169 4.483 -- 138 2486 0.2037 0.2228 -- 99.0
X Ray Diffraction 4.483 5.6453 -- 135 2476 0.1955 0.2429 -- 99.0
X Ray Diffraction 5.6453 38.9863 -- 142 2498 0.2015 0.2177 -- 98.0
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.052
f_dihedral_angle_d 20.823
f_bond_d 0.008
f_plane_restr 0.005
f_angle_d 1.183
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6432
Nucleic Acid Atoms 130
Heterogen Atoms 20
Solvent Atoms 11

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10.1_2155: ???)
XDS data reduction
SCALA data scaling
PHASER phasing