SMTL ID : 9far.1

CryoEM structure of gamma2 subunit of GABA(A)R in complex with GARLH4, the TMD of Neuroligin2 from a closed state, obtained by focused refinement

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x PLM: PALMITIC ACID(Non-covalent)

PLM.1: 8 residues within 4Å: Chain A: C.17, R.30, M.34, Y.37, F.41 Chain C: L.105, C.109, T.113 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:Y.37, A:Y.37, A:F.41, C:L.105 Salt bridges: A:R.30

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 14 residues within 4Å: Chain A: C.17, F.49, V.52, S.56, Y.57 Chain C: I.32, F.52, F.71, T.72, L.90, M.93, L.97, T.101 Ligands: CL.5 10 PLIP interactions: 5 interactions with chain C, 5 interactions with chain A Hydrophobic interactions: C:I.32, C:F.71, C:T.72, C:L.90, A:F.49, A:F.49, A:V.52, A:V.52, A:Y.57 Hydrogen bonds: C:F.71

1 x D10: DECANE(Non-covalent)

D10.3: 7 residues within 4Å: Chain A: L.48, L.51, V.55, L.60 Chain C: I.25, L.97 Ligands: PGW.4 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:L.48, A:L.51, A:V.55, A:L.60, C:L.97

1 x PGW: (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate(Non-covalent)

PGW.4: 13 residues within 4Å: Chain A: T.44, L.48, L.51 Chain C: R.10, A.17, I.18, I.21, I.100, F.103, F.106, F.107, Y.115 Ligands: D10.3 11 PLIP interactions: 8 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:A.17, C:I.21, C:F.106, C:F.106, C:F.106, A:T.44, A:L.48, A:L.51 Hydrogen bonds: C:F.107 Salt bridges: C:R.10, C:R.10

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 2 residues within 4Å: Chain C: S.70 Ligands: CLR.2 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kasaragod, V.B. et al., CryoEM structure of gamma2 subunit of GABA(A)R in complex with GARLH4, the TMD of Neuroligin2 from a closed state, obtained by focused refinement. To Be Published

Release Date

2025-07-02

Peptides

Isoform 2 of Gamma-aminobutyric acid receptor subunit gamma-2: A
Neuroligin-2: B
LHFPL tetraspan subfamily member 4 protein: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
H

C
L

Membrane

We predict this structure to be a membrane protein.
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Isoform 2 of Gamma-aminobutyric acid receptor subunit gamma-2

Neuroligin-2

LHFPL tetraspan subfamily member 4 protein

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