X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 289.0
Details 10 %(w/v) PEG 6000, 0.1 M calcium chloride, 0.1 M Hepes pH 7.5, 10 mM Penicillin G

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.78 α = 90
b = 131.57 β = 107.36
c = 46.06 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 X 6M -- 2018-03-06
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97918 APS 19-ID

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
2.44 33.5 99.4 0.084 -- -- 6.8 -- 17114 -- -- 53.7
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)
2.44 2.48 -- -- -- -- -- --

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 2.44 33.498 -- 0.32 -- 17084 837 99.19 -- 0.1846 0.1824 0.2292 --
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 2.4401 2.5929 -- 129 2654 0.2862 0.292 -- 97.0
X Ray Diffraction 2.5929 2.793 -- 139 2691 0.2489 0.2768 -- 100.0
X Ray Diffraction 2.793 3.0739 -- 154 2716 0.2357 0.2809 -- 100.0
X Ray Diffraction 3.0739 3.5183 -- 133 2723 0.2153 0.2899 -- 100.0
X Ray Diffraction 3.5183 4.431 -- 147 2715 0.1661 0.202 -- 100.0
X Ray Diffraction 4.431 33.5015 -- 135 2748 0.1455 0.1954 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 75.2
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.044
f_plane_restr 0.004
f_dihedral_angle_d 15.826
f_bond_d 0.003
f_angle_d 0.555
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3150
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 36

Software

Software
Software Name Purpose
PHENIX refinement version: (1.13_2998: ???)
SBC-Collect data collection
DIALS data reduction
xia2 data reduction
Aimless data scaling
HKL-3000 phasing
MOLREP phasing