SMTL ID : 9g60.1

CryoEM structure of human rho1 GABAA receptor in complex with muscimol and neurosteroid THDOC in the primed state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 x 01: Muscimol

01.1: 9 residues within 4Å: Chain A: E.217, S.218, Y.219, T.265, Y.268 Chain B: Y.123, R.125, M.177, S.189 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:E.217, A:Y.219, A:T.265, A:Y.268, B:R.125, B:S.189 pi-Stacking: A:Y.262 Hydrophobic interactions: B:Y.123 01.14: 9 residues within 4Å: Chain B: E.217, S.218, Y.219, T.265, Y.268 Chain C: Y.123, R.125, M.177, S.189 8 PLIP interactions: 3 interactions with chain C, 5 interactions with chain B Hydrophobic interactions: C:Y.123 Hydrogen bonds: C:R.125, C:S.189, B:E.217, B:Y.219, B:T.265, B:Y.268 pi-Stacking: B:Y.262 01.27: 9 residues within 4Å: Chain C: E.217, S.218, Y.219, T.265, Y.268 Chain D: Y.123, R.125, M.177, S.189 8 PLIP interactions: 5 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:E.217, C:Y.219, C:T.265, C:Y.268, D:R.125, D:S.189 pi-Stacking: C:Y.262 Hydrophobic interactions: D:Y.123 01.40: 9 residues within 4Å: Chain D: E.217, S.218, Y.219, T.265, Y.268 Chain E: Y.123, R.125, M.177, S.189 8 PLIP interactions: 3 interactions with chain E, 5 interactions with chain D Hydrophobic interactions: E:Y.123 Hydrogen bonds: E:R.125, E:S.189, D:E.217, D:Y.219, D:T.265, D:Y.268 pi-Stacking: D:Y.262 01.56: 9 residues within 4Å: Chain A: Y.123, R.125, M.177, S.189 Chain E: E.217, S.218, Y.219, T.265, Y.268 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain E Hydrophobic interactions: A:Y.123 Hydrogen bonds: A:R.125, A:S.189, E:E.217, E:Y.219, E:T.265, E:Y.268 pi-Stacking: E:Y.262

10 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 3 residues within 4Å: Chain A: T.138, N.139, N.140 No protein-ligand interaction detected (PLIP) NAG.3: 3 residues within 4Å: Chain A: N.234, H.254, T.255 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.255 NAG.15: 3 residues within 4Å: Chain B: T.138, N.139, N.140 No protein-ligand interaction detected (PLIP) NAG.16: 3 residues within 4Å: Chain B: N.234, H.254, T.255 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.255 NAG.28: 3 residues within 4Å: Chain C: T.138, N.139, N.140 No protein-ligand interaction detected (PLIP) NAG.29: 3 residues within 4Å: Chain C: N.234, H.254, T.255 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:T.255 NAG.41: 3 residues within 4Å: Chain D: T.138, N.139, N.140 No protein-ligand interaction detected (PLIP) NAG.42: 3 residues within 4Å: Chain D: N.234, H.254, T.255 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:T.255 NAG.57: 3 residues within 4Å: Chain E: T.138, N.139, N.140 No protein-ligand interaction detected (PLIP) NAG.58: 3 residues within 4Å: Chain E: N.234, H.254, T.255 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:T.255

25 x OCT: N-OCTANE(Non-functional Binders)(Non-covalent)

OCT.4: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.7: 2 residues within 4Å: Chain A: Y.458, S.459 Ligand excluded by PLIP OCT.11: 3 residues within 4Å: Chain A: A.363 Chain B: W.304 Ligands: HEX.23 Ligand excluded by PLIP OCT.12: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.13: 1 residues within 4Å: Chain A: F.470 Ligand excluded by PLIP OCT.17: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.20: 2 residues within 4Å: Chain B: Y.458, S.459 Ligand excluded by PLIP OCT.24: 3 residues within 4Å: Chain B: A.363 Chain C: W.304 Ligands: HEX.36 Ligand excluded by PLIP OCT.25: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.26: 1 residues within 4Å: Chain B: F.470 Ligand excluded by PLIP OCT.30: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.33: 2 residues within 4Å: Chain C: Y.458, S.459 Ligand excluded by PLIP OCT.37: 3 residues within 4Å: Chain C: A.363 Chain D: W.304 Ligands: HEX.49 Ligand excluded by PLIP OCT.38: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.39: 1 residues within 4Å: Chain C: F.470 Ligand excluded by PLIP OCT.43: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.46: 2 residues within 4Å: Chain D: Y.458, S.459 Ligand excluded by PLIP OCT.50: 3 residues within 4Å: Chain D: A.363 Chain E: W.304 Ligands: HEX.65 Ligand excluded by PLIP OCT.51: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.52: 1 residues within 4Å: Chain D: F.470 Ligand excluded by PLIP OCT.53: 3 residues within 4Å: Chain A: W.304 Chain E: A.363 Ligands: HEX.10 Ligand excluded by PLIP OCT.54: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.55: 1 residues within 4Å: Chain E: F.470 Ligand excluded by PLIP OCT.59: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.62: 2 residues within 4Å: Chain E: Y.458, S.459 Ligand excluded by PLIP

20 x HEX: HEXANE(Non-functional Binders)(Non-covalent)

HEX.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.6: 1 residues within 4Å: Chain A: I.461 Ligand excluded by PLIP HEX.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.10: 2 residues within 4Å: Chain A: M.297 Ligands: OCT.53 Ligand excluded by PLIP HEX.18: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.19: 1 residues within 4Å: Chain B: I.461 Ligand excluded by PLIP HEX.21: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.23: 2 residues within 4Å: Chain B: M.297 Ligands: OCT.11 Ligand excluded by PLIP HEX.31: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.32: 1 residues within 4Å: Chain C: I.461 Ligand excluded by PLIP HEX.34: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.36: 2 residues within 4Å: Chain C: M.297 Ligands: OCT.24 Ligand excluded by PLIP HEX.44: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.45: 1 residues within 4Å: Chain D: I.461 Ligand excluded by PLIP HEX.47: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.49: 2 residues within 4Å: Chain D: M.297 Ligands: OCT.37 Ligand excluded by PLIP HEX.60: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.61: 1 residues within 4Å: Chain E: I.461 Ligand excluded by PLIP HEX.63: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.65: 2 residues within 4Å: Chain E: M.297 Ligands: OCT.50 Ligand excluded by PLIP

5 x D10: DECANE(Non-covalent)

D10.9: 1 residues within 4Å: Chain A: L.472 No protein-ligand interaction detected (PLIP) D10.22: 1 residues within 4Å: Chain B: L.472 No protein-ligand interaction detected (PLIP) D10.35: 1 residues within 4Å: Chain C: L.472 No protein-ligand interaction detected (PLIP) D10.48: 1 residues within 4Å: Chain D: L.472 No protein-ligand interaction detected (PLIP) D10.64: 1 residues within 4Å: Chain E: L.472 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fan, C. et al., CryoEM structure of human rho1 GABAA receptor in complex with neurosteroid. To be published

Release Date

2025-07-30

Peptides

Gamma-aminobutyric acid receptor subunit rho-1: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Membrane

We predict this structure to be a membrane protein.
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Gamma-aminobutyric acid receptor subunit rho-1

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