Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Asymmetric gating of a homopentameric ion channel GLIC revealed by cryo-EM.
Journal, issue, pages	Proc Natl Acad Sci U S A, Vol. 122, Issue 43, Page e2512811122, Year 2025
Publish date	Oct 28, 2025
Authors	Zhuowen Li / Nikhil Bharambe / Kashmiri Manishrao Lande / Bjarne Feddersen / Asha Manikkoth Balakrishna / Philip C Biggin / Giriraj Sahu / Sandip Basak /
PubMed Abstract	Pentameric ligand-gated ion channels (pLGICs) are vital neurotransmitter receptors that are key therapeutic targets for neurological disorders. Although the high-resolution structures of these ...Pentameric ligand-gated ion channels (pLGICs) are vital neurotransmitter receptors that are key therapeutic targets for neurological disorders. Although the high-resolution structures of these channels have been elucidated, capturing their dynamic conformational transitions remains challenging due to the transient nature of intermediate states. In this study, we investigated a prokaryotic proton-gated pLGIC, GLIC. In our cryo-EM data at pH 4.0, we identified and segregated asymmetric particles, which we precisely aligned to resolve high-resolution structures of several previously unresolved asymmetric intermediate states, in addition to symmetric closed and open states. Detailed structural analysis revealed systematic conformational changes at individual subunits driving the channel opening. Molecular dynamics simulations were used to assign the functional states. We further examined the roles of the F116 and Y251 residues, located at the domain interface, playing a central role in interdomain communication. In addition, patch-clamp experiments on GLIC I240A and L241A mutants, located in the M2 helix, demonstrated their importance in channel gating. Together, these results shed light on the sequential and asymmetric conformational transitions that occur during GLIC activation, offering a deeper mechanistic understanding of asymmetric gating in pLGICs.
External links	Proc Natl Acad Sci U S A / PubMed:41129221 / PubMed Central
Methods	EM (single particle)
Resolution	2.14 - 3.45 Å
Structure data	62927 9lag EMDB-62927, PDB-9lag: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in iiiii conformation Method: EM (single particle) / Resolution: 2.96 Å 62929 9lai EMDB-62929, PDB-9lai: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in iiiio conformation Method: EM (single particle) / Resolution: 3.08 Å 62930 9laj EMDB-62930, PDB-9laj: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in iiioo conformation Method: EM (single particle) / Resolution: 3.16 Å 62931 9lak EMDB-62931, PDB-9lak: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in iiooo conformation Method: EM (single particle) / Resolution: 3.21 Å 62937 9lb9 EMDB-62937, PDB-9lb9: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in ioooo conformation Method: EM (single particle) / Resolution: 3.16 Å 62938 9lba EMDB-62938, PDB-9lba: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in ooooo conformation Method: EM (single particle) / Resolution: 2.85 Å 62939 9lbb EMDB-62939, PDB-9lbb: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in iioio conformation Method: EM (single particle) / Resolution: 3.45 Å 62940 9lbc EMDB-62940, PDB-9lbc: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in ioioo conformation Method: EM (single particle) / Resolution: 3.4 Å 62941 9lbd EMDB-62941, PDB-9lbd: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC F116A mutant at pH 2.5 Method: EM (single particle) / Resolution: 2.14 Å 62942 9lbe EMDB-62942, PDB-9lbe: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC Y251A mutant at pH 2.5 in ioooo conformation Method: EM (single particle) / Resolution: 2.87 Å
Chemicals	ChemComp-PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine / DOPE, phospholipidYM ChemComp-CL: Unknown entry ChemComp-HOH*: WATER
Source	gloeobacter violaceus (bacteria)
Keywords	MEMBRANE PROTEIN / pentameric ligand-gated ion channels / cis-loop / cryo-EM / nanodisc