X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.0
Details 2 % v/v Tacsimate pH 5.0, 0.1 M sodium citrate tribasic dihydrate pH 5.6, 16 % w/v PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 72.61 α = 90
b = 75.49 β = 90
c = 79.13 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M-F -- 2013-09-30
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.97731 PETRA III, EMBL c/o DESY P13 (MX1)

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
1.52 37.74 98.2 -- -- -- 13.5 1727260 127704 -- -- --
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)
1.52 1.61 -- -- -- 2.16 -- --

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 1.517 35.044 -- 1.36 -- 127679 2086 98.19 -- 0.1695 0.1692 0.1929 --
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 1.5172 1.5525 -- 123 7420 0.2805 0.2538 -- 87.0
X Ray Diffraction 1.5525 1.5914 -- 143 8343 0.2407 0.281 -- 98.0
X Ray Diffraction 1.5914 1.6344 -- 138 8416 0.2217 0.2208 -- 98.0
X Ray Diffraction 1.6344 1.6825 -- 138 8405 0.2119 0.2351 -- 98.0
X Ray Diffraction 1.6825 1.7368 -- 140 8376 0.2217 0.2452 -- 99.0
X Ray Diffraction 1.7368 1.7989 -- 144 8428 0.1901 0.216 -- 98.0
X Ray Diffraction 1.7989 1.8709 -- 141 8423 0.1783 0.2219 -- 99.0
X Ray Diffraction 1.8709 1.956 -- 144 8460 0.1758 0.1947 -- 99.0
X Ray Diffraction 1.956 2.0591 -- 140 8447 0.1647 0.161 -- 99.0
X Ray Diffraction 2.0591 2.1881 -- 139 8473 0.1655 0.1791 -- 99.0
X Ray Diffraction 2.1881 2.357 -- 137 8472 0.159 0.1545 -- 100.0
X Ray Diffraction 2.357 2.5942 -- 139 8500 0.174 0.2094 -- 100.0
X Ray Diffraction 2.5942 2.9694 -- 141 8471 0.1736 0.241 -- 99.0
X Ray Diffraction 2.9694 3.7404 -- 139 8539 0.1592 0.1963 -- 100.0
X Ray Diffraction 3.7404 35.0529 -- 140 8420 0.1491 0.1583 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.396
f_dihedral_angle_d 23.82
f_angle_d 1.031
f_plane_restr 0.006
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2983
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 353

Software

Software
Software Name Purpose
PHENIX refinement version: (1.13_2998: ???)
XDS data reduction
XSCALE data scaling
PHASER phasing