X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 0.1 M Imidazol, 8.25% (w/v) PEG 8000, 1% (v/v) MPD, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.19 α = 90
b = 78.99 β = 101.06
c = 70.1 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 95
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2010-04-08
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM

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
1.48 29.65 99.8 -- 0.066 -- 3.8 -- 115874 -3.0 -3.0 --
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)
1.48 1.52 99.8 -- 0.657 12.5 3.8 --

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 1.48 29.652 -- 0.0 115862 115862 5840 99.87 -- 0.1786 0.1776 0.1982 --
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 1.48 1.4968 -- 197 3622 0.2905 0.3028 -- 100.0
X Ray Diffraction 1.4968 1.5144 -- 219 3627 0.2819 0.315 -- 100.0
X Ray Diffraction 1.5144 1.5329 -- 189 3646 0.2697 0.3048 -- 100.0
X Ray Diffraction 1.5329 1.5523 -- 212 3697 0.2567 0.2761 -- 100.0
X Ray Diffraction 1.5523 1.5727 -- 164 3631 0.2427 0.2645 -- 100.0
X Ray Diffraction 1.5727 1.5943 -- 173 3709 0.2328 0.2364 -- 100.0
X Ray Diffraction 1.5943 1.617 -- 226 3609 0.2266 0.2473 -- 100.0
X Ray Diffraction 1.617 1.6412 -- 195 3633 0.2175 0.2657 -- 100.0
X Ray Diffraction 1.6412 1.6668 -- 206 3666 0.2124 0.236 -- 100.0
X Ray Diffraction 1.6668 1.6941 -- 203 3652 0.2059 0.2336 -- 100.0
X Ray Diffraction 1.6941 1.7234 -- 181 3665 0.1986 0.2207 -- 100.0
X Ray Diffraction 1.7234 1.7547 -- 180 3700 0.1932 0.2345 -- 100.0
X Ray Diffraction 1.7547 1.7884 -- 182 3634 0.1731 0.1801 -- 100.0
X Ray Diffraction 1.7884 1.8249 -- 215 3658 0.1688 0.1934 -- 100.0
X Ray Diffraction 1.8249 1.8646 -- 205 3632 0.1604 0.1579 -- 100.0
X Ray Diffraction 1.8646 1.908 -- 191 3670 0.165 0.2129 -- 100.0
X Ray Diffraction 1.908 1.9557 -- 208 3659 0.1652 0.1865 -- 100.0
X Ray Diffraction 1.9557 2.0086 -- 192 3685 0.1673 0.1957 -- 100.0
X Ray Diffraction 2.0086 2.0676 -- 185 3660 0.1729 0.2055 -- 100.0
X Ray Diffraction 2.0676 2.1344 -- 174 3683 0.1711 0.1844 -- 100.0
X Ray Diffraction 2.1344 2.2106 -- 195 3657 0.1678 0.2012 -- 100.0
X Ray Diffraction 2.2106 2.2991 -- 206 3651 0.166 0.1893 -- 100.0
X Ray Diffraction 2.2991 2.4037 -- 216 3667 0.1611 0.1815 -- 100.0
X Ray Diffraction 2.4037 2.5304 -- 198 3679 0.1637 0.1778 -- 100.0
X Ray Diffraction 2.5304 2.6888 -- 185 3679 0.1714 0.2083 -- 100.0
X Ray Diffraction 2.6888 2.8962 -- 188 3667 0.1754 0.1855 -- 100.0
X Ray Diffraction 2.8962 3.1874 -- 180 3723 0.1734 0.186 -- 100.0
X Ray Diffraction 3.1874 3.6479 -- 194 3689 0.1654 0.1863 -- 100.0
X Ray Diffraction 3.6479 4.5932 -- 209 3687 0.1466 0.1672 -- 100.0
X Ray Diffraction 4.5932 29.6575 -- 172 3785 0.1822 0.192 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic, TLS
Anisotropic B[1][1] -0.9853
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -4.1005
Anisotropic B[2][2] -0.8204
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.8057
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.08
f_dihedral_angle_d 13.844
f_angle_d 1.155
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4864
Nucleic Acid Atoms 0
Heterogen Atoms 106
Solvent Atoms 777

Software

Computing
Computing Package Purpose
SERGUI Data Collection
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHASER (2.1.4) Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
PHASER version: (2.1.4) model building
SERGUI data collection