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Sialic acid bound form of Tripartite ATP-independent Periplasmic (TRAP) transporter from Fusobacterium nucleatum.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other D_1300044572
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.695 f_angle_d 0.507 f_chiral_restr 0.041 f_plane_restr 0.005 f_bond_d 0.004
Sample Sialic acid bound form of TRAP transporter in 1:1 complex with its nanobody.
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 225006 Reported Resolution (Å) 3.16 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol OTHER Refinement Target Overall B Value 43.2 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 24.67
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1600 Maximum Defocus (nm) 2800 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode OTHER Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 75000 Calibrated Magnification 130841 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version MODEL REFINEMENT PHENIX 1.21_5207:
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 653554