X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 294.0
Details 14% PEG3350, 20% glycerol, 200 mM KI, and 25 mM CaCl2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.53 α = 90
b = 38.11 β = 96.04
c = 61.72 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 MARMOSAIC 225 mm CCD -- 2017-06-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1 APS 23-ID-B

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
1.46 19.09 99.3 -- -- -- 1.0 -- 32665 -- -- 19.09
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)
1.46 1.49 94.4 -- -- -- 1.0 --

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
-- 1.461 19.09 -- 1.35 -- 32658 1646 99.3 -- 0.1721 0.1708 0.198 --
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 1.4612 1.5042 -- 126 2490 0.2898 0.3243 0.0 97.0
X Ray Diffraction 1.5042 1.5527 -- 137 2558 0.2661 0.2501 0.0 99.0
X Ray Diffraction 1.5527 1.6082 -- 124 2582 0.2352 0.2937 0.0 99.0
X Ray Diffraction 1.6082 1.6726 -- 148 2574 0.214 0.2561 0.0 100.0
X Ray Diffraction 1.6726 1.7486 -- 131 2563 0.1991 0.2089 0.0 100.0
X Ray Diffraction 1.7486 1.8407 -- 131 2596 0.1876 0.2348 0.0 100.0
X Ray Diffraction 1.8407 1.956 -- 155 2614 0.1735 0.2067 0.0 100.0
X Ray Diffraction 1.956 2.1068 -- 144 2570 0.1557 0.1875 0.0 100.0
X Ray Diffraction 2.1068 2.3185 -- 136 2601 0.1559 0.1838 0.0 100.0
X Ray Diffraction 2.3185 2.6532 -- 145 2615 0.1606 0.2042 0.0 100.0
X Ray Diffraction 2.6532 3.3399 -- 143 2618 0.1558 0.1773 0.0 100.0
X Ray Diffraction 3.3399 19.0933 -- 126 2631 0.161 0.1825 0.0 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.2994
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.085
f_dihedral_angle_d 22.993
f_bond_d 0.008
f_chiral_restr 0.074
f_plane_restr 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1110
Nucleic Acid Atoms 244
Heterogen Atoms 86
Solvent Atoms 110

Software

Software
Software Name Purpose
PHENIX refinement version: 1.10.1_2155
Aimless data scaling version: 0.5.31
PDB_EXTRACT data extraction version: 3.24
HKL-2000 data reduction
PHENIX phasing