8P12

Cryo-EM structure of Rhodopsin-Gi bound to antibody fragment Fab13

Summary for 8P12

• Entry DOI: 10.2210/pdb8p12/pdb
• EMDB information: 17343
• Descriptor: Rhodopsin, Guanine nucleotide-binding protein G(i) subunit alpha-1, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, ... (6 entities in total)
• Functional Keywords: gpcr, rhodopsin, g protein, fab, signaling protein
• Biological source: Bos taurus (cattle); More
• Total number of polymer chains: 6
• Total formula weight: 181994.34

Authors

Pamula, F.,Tejero, O.,Muehle, J.,Thoma, R.,Schertler, G.F.X.,Marino, J.,Tsai, C.-J. (deposition date: 2023-05-11, release date: 2024-11-20, Last modification date: 2025-10-29)

Primary citation

Pamula, F.,Tejero, O.,Muhle, J.,Thoma, R.,Schertler, G.F.X.,Marino, J.,Tsai, C.J.
Tool antibody fragments reveal multiple conformations of the rhodopsin-Gi signaling complex.
Biophys.J., 2025

PubMed Abstract: Antibody Fab fragments are widely used protein binders that assist in structural studies of G-protein-coupled receptor (GPCR) signaling complexes. Expanding the repertoire of such binders to target distinct components of the signaling complex offers opportunities to probe conformational regulation and dynamics. Here, we report the biochemical and cryo-EM characterization of two Fab fragments, Fab79 and Fab13, raised against the rhodopsin-Gαiβγ complex. Fab79 binds to the flexible α-helical domain (AHD) of the Gαi subunit and prevents complex dissociation in the presence of the nonhydrolyzable GTP analog, GTPγS, likely by hindering AHD closure, a step necessary for complex dissociation. In contrast, Fab13 binds rigidly to Gβ without directly contacting Gα or the receptor. These findings show that Fab79 and Fab13 reveal functionally relevant conformational states of G-protein activation and serve as practical tools to stabilize or modulate GPCR signaling complexes.

PubMed: 41029899
DOI: 10.1016/j.bpj.2025.09.044

Experimental method

ELECTRON MICROSCOPY (3.21 Å)