X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 277.0
Details 0.1 M Tris-HCl, pH 8.0, 19 % (w/v) PEG 4000 and 100 mM KCl, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.89 α = 90
b = 76.76 β = 105.88
c = 91.86 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 -- 2012-04-17
Diffraction Radiation
Monochromator Protocol
Si-111 crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 0.9184 BESSY 14.2

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
1.85 35 99.7 0.08 0.07 -- 3.4 45624 45500 2.0 2.0 --
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)
1.85 1.9 100.0 0.88 0.74 2.0 3.4 --

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 1.85 33.953 -- -- 45624 45497 2275 99.8 0.1703 0.1703 0.1679 0.2174 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 1.85 1.8902 -- 139 2645 0.263 0.3516 -- 100.0
X Ray Diffraction 1.8902 1.9342 -- 142 2695 0.241 0.2841 -- 100.0
X Ray Diffraction 1.9342 1.9826 -- 141 2691 0.2188 0.2771 -- 100.0
X Ray Diffraction 1.9826 2.0362 -- 143 2722 0.2045 0.2928 -- 100.0
X Ray Diffraction 2.0362 2.0961 -- 140 2649 0.1961 0.2856 -- 100.0
X Ray Diffraction 2.0961 2.1637 -- 141 2690 0.1875 0.2397 -- 100.0
X Ray Diffraction 2.1637 2.241 -- 143 2706 0.1805 0.2436 -- 100.0
X Ray Diffraction 2.241 2.3308 -- 142 2705 0.175 0.2492 -- 100.0
X Ray Diffraction 2.3308 2.4368 -- 143 2703 0.1717 0.2398 -- 100.0
X Ray Diffraction 2.4368 2.5652 -- 141 2690 0.1697 0.2137 -- 100.0
X Ray Diffraction 2.5652 2.7259 -- 142 2703 0.1822 0.2353 -- 100.0
X Ray Diffraction 2.7259 2.9363 -- 144 2729 0.1708 0.239 -- 100.0
X Ray Diffraction 2.9363 3.2315 -- 142 2706 0.1623 0.1841 -- 100.0
X Ray Diffraction 3.2315 3.6987 -- 143 2717 0.1432 0.1653 -- 100.0
X Ray Diffraction 3.6987 4.658 -- 143 2710 0.1295 0.1809 -- 100.0
X Ray Diffraction 4.658 33.9582 -- 146 2761 0.1544 0.1885 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 13.4365
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -7.0709
Anisotropic B[2][2] 6.4617
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 8.8554
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.08
f_dihedral_angle_d 15.056
f_angle_d 1.157
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4515
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 513

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
PHASER model building
MAR345dtb data collection