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Drosophila NOD (3DC4) and Bovine Tubulin (1JFF) Docked into the 11-Angstrom Cryo-EM Map of Nucleotide-Free NOD Complexed to the Microtubule
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DC4 experimental model PDB 1JFF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop 6.5 277 0.1 MES, 15% PEG 20000, Se-MET Derivative, pH 6.5, hanging drop, temperature 277K 2 hanging drop 6.5 277 0.1 MES, 15% PEG 20000, NATIVE PROTEIN, pH 6.5, hanging drop, temperature 277K
Diffraction Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X6A 0.9790, 0.9796, 0.9184 NSLS X6A 2 SYNCHROTRON NSLS BEAMLINE X6A 0.9791 NSLS X6A
Refinement RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 23.8 c_improper_angle_d 2.27 c_angle_deg 1.6 c_bond_d 0.006 c_mcbond_it c_mcangle_it c_scbond_it c_scangle_it
Sample Nucleotide-Free NOD (3DC4)Complexed to Microtubule
Specimen Preparation Sample Aggregation State HELICAL ARRAY Vitrification Instrument HOMEMADE PLUNGER Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles Reported Resolution (Å) 11 Resolution Method Other Details Refinement Type Symmetry Type HELICAL
Map-Model Fitting and Refinement Id 1 (3DC4, 1JFF) Refinement Space REAL Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type KODAK SO-163 FILM Electron Dose (electrons/Å**2) 16
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model JEOL 4000EX Minimum Defocus (nm) 700 Maximum Defocus (nm) 1500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 60000 Calibrated Magnification Source LAB6 Acceleration Voltage (kV) 400 Imaging Details
EM Software Task Software Package Version MODEL FITTING Situs RECONSTRUCTION SPIDER