X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5
Temperature 277.0
Details 10% 2-propanol, 0.1 M sodium citrate, 26% PEG 400, 10 mM 2-mercaptoethanol, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 29.61 α = 90
b = 43.61 β = 90
c = 63.47 γ = 90
Symmetry
Space Group P 2 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2012-02-09
Diffraction Radiation
Monochromator Protocol
Liquid nitrogen-cooled double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL12-2 1.0000 SSRL BL12-2

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
1.35 19.39 98.9 0.058 -- -- 3.9 -- 18421 -- -- --
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)
1.35 1.37 99.6 0.692 -- 1.7 3.6 876

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 1.35 19.39 -- 1.77 -- 18388 1090 98.48 -- 0.1817 0.1806 0.1984 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 1.35 1.4114 -- 123 2144 0.2655 0.2785 -- 99.0
X Ray Diffraction 1.4114 1.4858 -- 140 2119 0.2145 0.2469 -- 99.0
X Ray Diffraction 1.4858 1.5789 -- 145 2134 0.1927 0.2394 -- 99.0
X Ray Diffraction 1.5789 1.7007 -- 156 2137 0.1806 0.1935 -- 99.0
X Ray Diffraction 1.7007 1.8717 -- 130 2166 0.1793 0.1847 -- 99.0
X Ray Diffraction 1.8717 2.1423 -- 133 2175 0.1579 0.1952 -- 99.0
X Ray Diffraction 2.1423 2.6979 -- 141 2194 0.1718 0.2047 -- 98.0
X Ray Diffraction 2.6979 19.3924 -- 122 2229 0.1801 0.1791 -- 95.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.066
f_dihedral_angle_d 18.699
f_angle_d 1.039
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 803
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 81

Software

Computing
Computing Package Purpose
BLU-ICE Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8_1069) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8_1069) refinement
PHASER model building
BLU-ICE data collection