EMD-42012

Single-particle
3.3 Å
EMD-42012 Deposition: 15/09/2023
Map released: 31/01/2024
Last modified: 14/02/2024
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-42012

Human retinal variant phosphomimetic IMPDH1(546)-S477D filament bound by GTP, ATP, IMP, and NAD+, interface-centered

EMD-42012

Single-particle
3.3 Å
EMD-42012 Deposition: 15/09/2023
Map released: 31/01/2024
Last modified: 14/02/2024
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Sample Organism: Homo sapiens
Sample: IMPDH1(546)-S477D filament bound by GTP, ATP, IMP, and NAD+
Fitted models: 8u7v (Avg. Q-score: 0.514)

Deposition Authors: Calise SJ , Kollman JM
Light-sensitive phosphorylation regulates retinal IMPDH1 activity and filament assembly.
PUBMED: 38323936
DOI: doi:10.1083/jcb.202310139
ISSN: 1540-8140
ASTM: JCLBA3
Abstract:
Inosine monophosphate dehydrogenase (IMPDH) is the rate-limiting enzyme in guanosine triphosphate (GTP) synthesis and assembles into filaments in cells, which desensitizes the enzyme to feedback inhibition and boosts nucleotide production. The vertebrate retina expresses two splice variants IMPDH1(546) and IMPDH1(595). In bovine retinas, residue S477 is preferentially phosphorylated in the dark, but the effects on IMPDH1 activity and regulation are unclear. Here, we generated phosphomimetic mutants to investigate structural and functional consequences of S477 phosphorylation. The S477D mutation resensitized both variants to GTP inhibition but only blocked assembly of IMPDH1(595) filaments. Cryo-EM structures of both variants showed that S477D specifically blocks assembly of a high-activity assembly interface, still allowing assembly of low-activity IMPDH1(546) filaments. Finally, we discovered that S477D exerts a dominant-negative effect in cells, preventing endogenous IMPDH filament assembly. By modulating the structure and higher-order assembly of IMPDH, S477 phosphorylation acts as a mechanism for downregulating retinal GTP synthesis in the dark when nucleotide turnover is decreased.