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cryo-EM of human GLP-1R bound to non-peptide agonist LY3502970
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5VAI
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.6093 f_angle_d 1.0773 f_chiral_restr 0.0644 f_bond_d 0.0109 f_plane_restr 0.0071
Sample Cryo-EM structure of the Glucagon-like peptide-1 receptor in complex with G protein and a non-peptide agonist LY3502970 Sample Components Glucagon-like peptide 1 receptor Trimeric stimulatory G protein Nanobody 35 Single-chain variable fragment 16
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 583053 Reported Resolution (Å) 3.1 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (5VAI) Refinement Space Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 72.5 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 81.56
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version CTF CORRECTION RELION 3.0 MODEL FITTING PHENIX 1.13 MODEL REFINEMENT PHENIX 1.13 RECONSTRUCTION RELION 3.0
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1598390