SMTL ID : 9g7a.1

CryoEM structure of human rho1 GABAA receptor in complex with loreclezole

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

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

NAG.1: 1 residues within 4Å: Chain A: N.140 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.138, A:N.140 NAG.2: 1 residues within 4Å: Chain A: N.234 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.234 NAG.13: 1 residues within 4Å: Chain B: N.140 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.138, B:N.140 NAG.14: 1 residues within 4Å: Chain B: N.234 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.234 NAG.24: 1 residues within 4Å: Chain C: N.140 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.138, C:N.140 NAG.25: 1 residues within 4Å: Chain C: N.234 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.234 NAG.35: 1 residues within 4Å: Chain D: N.140 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:T.138, D:N.140 NAG.36: 1 residues within 4Å: Chain D: N.234 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.234 NAG.47: 1 residues within 4Å: Chain E: N.140 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:T.138, E:N.140 NAG.48: 1 residues within 4Å: Chain E: N.234 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.234

25 x HEX: HEXANE(Non-covalent)

HEX.3: 3 residues within 4Å: Chain A: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.4: 1 residues within 4Å: Chain A: E.361 Ligand excluded by PLIP HEX.5: 3 residues within 4Å: Chain A: I.346, F.470, I.473 Ligand excluded by PLIP HEX.8: 3 residues within 4Å: Chain A: A.364, Y.367 Chain B: W.304 Ligand excluded by PLIP HEX.9: 3 residues within 4Å: Chain A: W.304, R.460, I.461 Ligand excluded by PLIP HEX.15: 3 residues within 4Å: Chain B: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.16: 1 residues within 4Å: Chain B: E.361 Ligand excluded by PLIP HEX.17: 3 residues within 4Å: Chain B: I.346, F.470, I.473 Ligand excluded by PLIP HEX.20: 3 residues within 4Å: Chain B: A.364, Y.367 Chain C: W.304 Ligand excluded by PLIP HEX.21: 3 residues within 4Å: Chain B: W.304, R.460, I.461 Ligand excluded by PLIP HEX.26: 3 residues within 4Å: Chain C: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.27: 1 residues within 4Å: Chain C: E.361 Ligand excluded by PLIP HEX.28: 3 residues within 4Å: Chain C: I.346, F.470, I.473 Ligand excluded by PLIP HEX.31: 4 residues within 4Å: Chain C: A.364, Y.367 Chain D: V.301, W.304 Ligand excluded by PLIP HEX.32: 3 residues within 4Å: Chain C: W.304, R.460, I.461 Ligand excluded by PLIP HEX.37: 3 residues within 4Å: Chain D: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.38: 1 residues within 4Å: Chain D: E.361 Ligand excluded by PLIP HEX.39: 3 residues within 4Å: Chain D: I.346, F.470, I.473 Ligand excluded by PLIP HEX.42: 3 residues within 4Å: Chain D: A.364, Y.367 Chain E: W.304 Ligand excluded by PLIP HEX.43: 3 residues within 4Å: Chain D: W.304, R.460, I.461 Ligand excluded by PLIP HEX.49: 3 residues within 4Å: Chain E: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.50: 1 residues within 4Å: Chain E: E.361 Ligand excluded by PLIP HEX.51: 3 residues within 4Å: Chain E: I.346, F.470, I.473 Ligand excluded by PLIP HEX.54: 3 residues within 4Å: Chain A: W.304 Chain E: A.364, Y.367 Ligand excluded by PLIP HEX.55: 3 residues within 4Å: Chain E: W.304, R.460, I.461 Ligand excluded by PLIP

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

OCT.6: 3 residues within 4Å: Chain A: N.471, L.472 Ligands: OCT.7 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.472 OCT.7: 3 residues within 4Å: Chain A: W.475, S.479 Ligands: OCT.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.475, A:W.475, A:W.475, A:W.475 OCT.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) OCT.18: 3 residues within 4Å: Chain B: N.471, L.472 Ligands: OCT.19 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.472 OCT.19: 3 residues within 4Å: Chain B: W.475, S.479 Ligands: OCT.18 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.475, B:W.475, B:W.475, B:W.475 OCT.22: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) OCT.29: 3 residues within 4Å: Chain C: N.471, L.472 Ligands: OCT.30 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.472 OCT.30: 3 residues within 4Å: Chain C: W.475, S.479 Ligands: OCT.29 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:W.475, C:W.475, C:W.475, C:W.475 OCT.33: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) OCT.40: 3 residues within 4Å: Chain D: N.471, L.472 Ligands: OCT.41 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:L.472 OCT.41: 3 residues within 4Å: Chain D: W.475, S.479 Ligands: OCT.40 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:W.475, D:W.475, D:W.475, D:W.475 OCT.44: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) OCT.52: 3 residues within 4Å: Chain E: N.471, L.472 Ligands: OCT.53 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:L.472 OCT.53: 3 residues within 4Å: Chain E: W.475, S.479 Ligands: OCT.52 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:W.475, E:W.475, E:W.475, E:W.475 OCT.56: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

5 x 01: 1-[(~{Z})-2-chloranyl-2-(2,4-dichlorophenyl)ethenyl]-1,2,4-triazole

01.11: 10 residues within 4Å: Chain A: S.325, I.328, T.329, N.332, W.349, F.352 Chain B: L.286, Q.287, F.290, P.291 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.328, A:I.328, A:W.349, B:P.291 Water bridges: A:T.329, A:A.333 Halogen bonds: A:S.325, A:N.332 01.23: 10 residues within 4Å: Chain B: S.325, I.328, T.329, N.332, W.349, F.352 Chain C: L.286, Q.287, F.290, P.291 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:I.328, B:I.328, B:W.349, C:P.291 Water bridges: B:T.329, B:A.333 Halogen bonds: B:S.325, B:N.332 01.34: 10 residues within 4Å: Chain C: S.325, I.328, T.329, N.332, W.349, F.352 Chain D: L.286, Q.287, F.290, P.291 8 PLIP interactions: 7 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:I.328, C:I.328, C:W.349, D:P.291 Water bridges: C:T.329, C:A.333 Halogen bonds: C:S.325, C:N.332 01.45: 10 residues within 4Å: Chain D: S.325, I.328, T.329, N.332, W.349, F.352 Chain E: L.286, Q.287, F.290, P.291 8 PLIP interactions: 7 interactions with chain D, 1 interactions with chain E Hydrophobic interactions: D:I.328, D:I.328, D:W.349, E:P.291 Water bridges: D:T.329, D:A.333 Halogen bonds: D:S.325, D:N.332 01.46: 10 residues within 4Å: Chain A: L.286, Q.287, F.290, P.291 Chain E: S.325, I.328, T.329, N.332, W.349, F.352 8 PLIP interactions: 7 interactions with chain E, 1 interactions with chain A Hydrophobic interactions: E:I.328, E:I.328, E:W.349, A:P.291 Water bridges: E:T.329, E:A.333 Halogen bonds: E:S.325, E:N.332

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

CL.12: 1 residues within 4Å: Chain C: P.311 Ligand excluded by 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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