6ETH

The Structure of the Mo-insertase domain Cnx1E from Arabidopsis thaliana in complex with AMP and tungstate


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.4
Temperature 293.0
Details 20 % (v/v) 1,2-Ethanediol; 10 % (w/v) PEG 8000; 0.3 M MgCl2; 0.3 M CaCl2; 0.1 M Tris/BICINE, pH 7.4

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.5 α = 90
b = 123.47 β = 90
c = 133.6 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M mirrors 2017-06-03
Diffraction Radiation
Monochromator Protocol
SI111 double crystal with sagital bender SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 1.2094 BESSY 14.1

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
1.64 42.58 75.7 0.057 -- -- 14.89 -- 50634 -- -3.0 36.78
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)
1.637 1.77 18.4 1.864 -- -- 17.05 --

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 1.64 42.58 -- 0.0 -- 50634 2629 75.7 -- 0.187 0.186 0.2 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 1.64 1.68 -- -- 233 0.2343 0.2699 -- 4.99
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.61
Anisotropic B[1][1] -0.3151
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.6268
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.3117
RMS Deviations
Key Refinement Restraint Deviation
t_bond_d 0.01
t_omega_torsion 3.7
t_angle_deg 1.07
t_other_torsion 13.07
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.23
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3099
Nucleic Acid Atoms 0
Heterogen Atoms 47
Solvent Atoms 325

Software

Software
Software Name Purpose
BUSTER refinement version: 2.10.3
MxCuBE data collection
XDS data reduction version: Nov 1, 2016
STARANISO data scaling version: 1.0.5
PHASER phasing version: 2.6.0