SMTL ID : 9frh.1

CryoEM structure of human rho1 GABAA receptor in complex with (R)-GABOB in the primed state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 x 01: (R)-amino-3-hydroxybutanoic acid

01.1: 10 residues within 4Å: Chain A: E.217, S.218, Y.219, Y.262, T.265, Y.268 Chain B: Y.123, R.125, M.177, S.189 8 PLIP interactions: 4 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:E.217, A:S.218, A:T.265, A:T.265, B:S.189, B:S.189 Hydrophobic interactions: B:Y.123 Salt bridges: B:R.125 01.13: 10 residues within 4Å: Chain B: E.217, S.218, Y.219, Y.262, T.265, Y.268 Chain C: Y.123, R.125, M.177, S.189 8 PLIP interactions: 4 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:Y.123 Hydrogen bonds: C:S.189, C:S.189, B:E.217, B:S.218, B:T.265, B:T.265 Salt bridges: C:R.125 01.24: 10 residues within 4Å: Chain C: E.217, S.218, Y.219, Y.262, T.265, Y.268 Chain D: Y.123, R.125, M.177, S.189 8 PLIP interactions: 4 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: D:Y.123 Hydrogen bonds: D:S.189, D:S.189, C:E.217, C:S.218, C:T.265, C:T.265 Salt bridges: D:R.125 01.35: 10 residues within 4Å: Chain D: E.217, S.218, Y.219, Y.262, T.265, Y.268 Chain E: Y.123, R.125, M.177, S.189 8 PLIP interactions: 4 interactions with chain D, 4 interactions with chain E Hydrogen bonds: D:E.217, D:S.218, D:T.265, D:T.265, E:S.189, E:S.189 Hydrophobic interactions: E:Y.123 Salt bridges: E:R.125 01.48: 10 residues within 4Å: Chain A: Y.123, R.125, M.177, S.189 Chain E: E.217, S.218, Y.219, Y.262, T.265, Y.268 8 PLIP interactions: 4 interactions with chain A, 4 interactions with chain E Hydrophobic interactions: A:Y.123 Hydrogen bonds: A:S.189, A:S.189, E:E.217, E:S.218, E:T.265, E:T.265 Salt bridges: A:R.125

10 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.2: 1 residues within 4Å: Chain A: N.140 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.140 NAG.3: 1 residues within 4Å: Chain A: N.234 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.234 NAG.14: 1 residues within 4Å: Chain B: N.140 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.140 NAG.15: 1 residues within 4Å: Chain B: N.234 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.234 NAG.25: 1 residues within 4Å: Chain C: N.140 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.140 NAG.26: 1 residues within 4Å: Chain C: N.234 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.234 NAG.36: 1 residues within 4Å: Chain D: N.140 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.140 NAG.37: 1 residues within 4Å: Chain D: N.234 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.234 NAG.49: 1 residues within 4Å: Chain E: N.140 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.140 NAG.50: 1 residues within 4Å: Chain E: N.234 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.234

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

OCT.4: 3 residues within 4Å: Chain A: W.304 Chain E: Y.367, L.368 Ligand excluded by PLIP OCT.5: 3 residues within 4Å: Chain A: Y.289, F.290, T.293 Ligand excluded by PLIP OCT.8: 2 residues within 4Å: Chain A: I.455, S.459 Ligand excluded by PLIP OCT.10: 2 residues within 4Å: Chain A: V.353 Chain B: L.286 Ligand excluded by PLIP OCT.11: 2 residues within 4Å: Chain A: I.473, I.477 Ligand excluded by PLIP OCT.16: 2 residues within 4Å: Chain A: Y.367 Chain B: W.304 Ligand excluded by PLIP OCT.17: 3 residues within 4Å: Chain B: Y.289, F.290, T.293 Ligand excluded by PLIP OCT.20: 2 residues within 4Å: Chain B: I.455, S.459 Ligand excluded by PLIP OCT.22: 2 residues within 4Å: Chain B: V.353 Chain C: L.286 Ligand excluded by PLIP OCT.23: 2 residues within 4Å: Chain B: I.473, I.477 Ligand excluded by PLIP OCT.27: 3 residues within 4Å: Chain B: Y.367, L.368 Chain C: W.304 Ligand excluded by PLIP OCT.28: 3 residues within 4Å: Chain C: Y.289, F.290, T.293 Ligand excluded by PLIP OCT.31: 2 residues within 4Å: Chain C: I.455, S.459 Ligand excluded by PLIP OCT.33: 2 residues within 4Å: Chain C: V.353 Chain D: L.286 Ligand excluded by PLIP OCT.34: 2 residues within 4Å: Chain C: I.473, I.477 Ligand excluded by PLIP OCT.38: 3 residues within 4Å: Chain C: Y.367, L.368 Chain D: W.304 Ligand excluded by PLIP OCT.39: 3 residues within 4Å: Chain D: Y.289, F.290, T.293 Ligand excluded by PLIP OCT.42: 2 residues within 4Å: Chain D: I.455, S.459 Ligand excluded by PLIP OCT.44: 2 residues within 4Å: Chain D: V.353 Chain E: L.286 Ligand excluded by PLIP OCT.45: 2 residues within 4Å: Chain D: I.473, I.477 Ligand excluded by PLIP OCT.46: 3 residues within 4Å: Chain A: L.286 Chain E: W.349, V.353 Ligand excluded by PLIP OCT.47: 3 residues within 4Å: Chain E: I.346, I.473, I.477 Ligand excluded by PLIP OCT.51: 3 residues within 4Å: Chain D: Y.367, L.368 Chain E: W.304 Ligand excluded by PLIP OCT.52: 3 residues within 4Å: Chain E: Y.289, F.290, T.293 Ligand excluded by PLIP OCT.55: 2 residues within 4Å: Chain E: I.455, S.459 Ligand excluded by PLIP

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

HEX.6: 2 residues within 4Å: Chain A: W.475, S.479 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.475, A:W.475, A:W.475 HEX.7: 2 residues within 4Å: Chain A: W.304, R.460 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.304 HEX.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) HEX.18: 2 residues within 4Å: Chain B: W.475, S.479 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:W.475, B:W.475, B:W.475 HEX.19: 2 residues within 4Å: Chain B: W.304, R.460 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:W.304 HEX.21: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) HEX.29: 2 residues within 4Å: Chain C: W.475, S.479 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:W.475, C:W.475, C:W.475 HEX.30: 2 residues within 4Å: Chain C: W.304, R.460 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:W.304 HEX.32: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) HEX.40: 2 residues within 4Å: Chain D: W.475, S.479 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:W.475, D:W.475, D:W.475 HEX.41: 2 residues within 4Å: Chain D: W.304, R.460 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:W.304 HEX.43: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) HEX.53: 2 residues within 4Å: Chain E: W.475, S.479 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:W.475, E:W.475, E:W.475 HEX.54: 2 residues within 4Å: Chain E: W.304, R.460 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:W.304 HEX.56: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

CL.12: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fan, C. et al., Cryo-EM structures of Rho1 GABAA receptors with antagonist and agonist drugs. To Be Published

Release Date

2025-07-02

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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