X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details HEPES, PEG 20000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 111.02 α = 90
b = 54.55 β = 95.82
c = 140.47 γ = 90
Symmetry
Space Group I 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX225HE -- 2014-07-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL26B2 1.0 SPring-8 BL26B2

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 34.94 99.1 0.173 -- -- 3.8 -- 56417 -- -- 18.2
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)
2.0 2.05 98.3 0.84 -- -- 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
MAD 2.0 34.937 -- 1.34 -- 56397 2822 99.12 -- 0.1815 0.1796 0.2182 --
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 2.0 2.0345 -- 139 2632 0.277 0.3155 0.0 98.0
X Ray Diffraction 2.0345 2.0715 -- 150 2632 0.2572 0.2792 0.0 99.0
X Ray Diffraction 2.0715 2.1113 -- 145 2583 0.2391 0.2869 0.0 97.0
X Ray Diffraction 2.1113 2.1544 -- 127 2680 0.2228 0.2757 0.0 100.0
X Ray Diffraction 2.1544 2.2012 -- 130 2641 0.2117 0.269 0.0 98.0
X Ray Diffraction 2.2012 2.2524 -- 135 2679 0.2131 0.2276 0.0 99.0
X Ray Diffraction 2.2524 2.3088 -- 148 2634 0.2031 0.2527 0.0 98.0
X Ray Diffraction 2.3088 2.3712 -- 143 2663 0.205 0.2547 0.0 98.0
X Ray Diffraction 2.3712 2.4409 -- 143 2682 0.2058 0.2565 0.0 100.0
X Ray Diffraction 2.4409 2.5197 -- 141 2632 0.1969 0.2526 0.0 99.0
X Ray Diffraction 2.5197 2.6097 -- 123 2685 0.1895 0.2366 0.0 99.0
X Ray Diffraction 2.6097 2.7142 -- 163 2693 0.1854 0.2486 0.0 100.0
X Ray Diffraction 2.7142 2.8376 -- 137 2658 0.1867 0.2357 0.0 99.0
X Ray Diffraction 2.8376 2.9872 -- 150 2677 0.186 0.2121 0.0 99.0
X Ray Diffraction 2.9872 3.1742 -- 145 2712 0.1804 0.2179 0.0 100.0
X Ray Diffraction 3.1742 3.4191 -- 147 2686 0.1627 0.2071 0.0 99.0
X Ray Diffraction 3.4191 3.7628 -- 144 2703 0.1559 0.1922 0.0 100.0
X Ray Diffraction 3.7628 4.3064 -- 137 2724 0.1349 0.1469 0.0 100.0
X Ray Diffraction 4.3064 5.4224 -- 129 2772 0.1309 0.1694 0.0 100.0
X Ray Diffraction 5.4224 34.9423 -- 146 2807 0.1575 0.1696 0.0 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.0099
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.047
f_dihedral_angle_d 3.982
f_bond_d 0.002
f_angle_d 0.531
f_plane_restr 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6016
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 598

Software

Software
Software Name Purpose
MOSFLM data collection
Aimless data scaling version: 0.3.11
PHENIX refinement version: 1.11.1_2575
PDB_EXTRACT data extraction version: 3.22
MOSFLM data reduction
CRANK phasing