X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.9
Temperature 277.0
Details 11% PEG 8000, 0.2 M ammonium sulfate, 0.1 M Tris-HCl, pH 8.9, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 260.67 α = 90
b = 145.17 β = 90
c = 104.44 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2009-07-14
Diffraction Radiation
Monochromator Protocol
Double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-D 0.97948 APS 23-ID-D

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
2.25 50 99.9 0.094 0.094 -- 6.63 187880 187671 -- -- --
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)
2.25 2.31 99.9 0.994 -- 1.9 5.98 13781

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 2.25 48.491 -- 1.99 -- 187662 1009 99.9 -- 0.1719 0.1717 0.212 --
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 2.25 2.3686 -- 146 26386 0.2138 0.256 -- 100.0
X Ray Diffraction 2.3686 2.517 -- 129 26447 0.1901 0.2532 -- 100.0
X Ray Diffraction 2.517 2.7114 -- 140 26453 0.1703 0.2404 -- 100.0
X Ray Diffraction 2.7114 2.9842 -- 136 26594 0.1629 0.213 -- 100.0
X Ray Diffraction 2.9842 3.4159 -- 153 26563 0.1603 0.2383 -- 100.0
X Ray Diffraction 3.4159 4.3033 -- 155 26772 0.1503 0.1741 -- 100.0
X Ray Diffraction 4.3033 48.5026 -- 150 27438 0.1569 0.185 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -2.0843
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.0583
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.974
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.153
f_chiral_restr 0.071
f_plane_restr 0.005
f_bond_d 0.009
f_dihedral_angle_d 16.385
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 20735
Nucleic Acid Atoms 0
Heterogen Atoms 224
Solvent Atoms 1227

Software

Software
Software Name Purpose
Blu-Ice data collection
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.6_289)
XDS data reduction
XDS data scaling