SMTL ID : 8op9.1

CryoEM structure of human rho1 GABAA receptor in complex with GABA

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 x ABU: GAMMA-AMINO-BUTANOIC ACID(Non-covalent)

ABU.1: 10 residues within 4Å: Chain A: F.159, E.217, S.218, Y.219, Y.262, T.265, Y.268 Chain B: Y.123, R.125, S.189 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.218, B:S.189 Salt bridges: B:R.125 ABU.8: 10 residues within 4Å: Chain A: Y.123, R.125, S.189 Chain E: F.159, E.217, S.218, Y.219, Y.262, T.265, Y.268 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: A:Y.123, A:Y.123 Hydrogen bonds: A:S.189, A:S.189, E:S.218 Salt bridges: A:R.125 ABU.16: 10 residues within 4Å: Chain B: F.159, E.217, S.218, Y.219, Y.262, T.265, Y.268 Chain C: Y.123, R.125, S.189 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:S.189, C:S.189, B:S.218 Salt bridges: C:R.125 ABU.17: 10 residues within 4Å: Chain C: F.159, E.217, S.218, Y.219, Y.262, T.265, Y.268 Chain D: Y.123, R.125, S.189 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:S.189, C:S.218 Salt bridges: D:R.125 ABU.30: 10 residues within 4Å: Chain D: F.159, E.217, S.218, Y.219, Y.262, T.265, Y.268 Chain E: R.125, M.177, S.189 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain E Hydrogen bonds: D:S.218, E:S.189 Salt bridges: E:R.125

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

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: 3 residues within 4Å: Chain A: N.234, H.254, T.255 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:H.254 Hydrogen bonds: A:N.234 NAG.10: 1 residues within 4Å: Chain B: N.140 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.140 NAG.11: 3 residues within 4Å: Chain B: N.234, H.254, T.255 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:H.254 Hydrogen bonds: B:N.234 NAG.18: 1 residues within 4Å: Chain C: N.140 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.140 NAG.19: 3 residues within 4Å: Chain C: N.234, H.254, T.255 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:H.254 Hydrogen bonds: C:N.234 NAG.24: 1 residues within 4Å: Chain D: N.140 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.140 NAG.25: 3 residues within 4Å: Chain D: N.234, H.254, T.255 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:H.254 Hydrogen bonds: D:N.234 NAG.31: 1 residues within 4Å: Chain E: N.140 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.140 NAG.32: 3 residues within 4Å: Chain E: N.234, H.254, T.255 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:H.254 Hydrogen bonds: E:N.234

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

HEX.4: 2 residues within 4Å: Chain A: W.304, I.461 Ligand excluded by PLIP HEX.5: 3 residues within 4Å: Chain A: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.6: 4 residues within 4Å: Chain A: V.301, W.304 Chain E: L.360, A.363 Ligand excluded by PLIP HEX.7: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.12: 2 residues within 4Å: Chain B: W.304, I.461 Ligand excluded by PLIP HEX.13: 3 residues within 4Å: Chain B: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.14: 2 residues within 4Å: Chain B: V.301, W.304 Ligand excluded by PLIP HEX.15: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.20: 2 residues within 4Å: Chain C: W.304, I.461 Ligand excluded by PLIP HEX.21: 3 residues within 4Å: Chain C: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.22: 3 residues within 4Å: Chain B: L.360 Chain C: V.301, W.304 Ligand excluded by PLIP HEX.23: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.26: 2 residues within 4Å: Chain D: W.304, I.461 Ligand excluded by PLIP HEX.27: 3 residues within 4Å: Chain D: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.28: 3 residues within 4Å: Chain C: L.360 Chain D: V.301, W.304 Ligand excluded by PLIP HEX.29: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP HEX.33: 2 residues within 4Å: Chain E: W.304, I.461 Ligand excluded by PLIP HEX.34: 3 residues within 4Å: Chain E: Y.458, S.459, I.462 Ligand excluded by PLIP HEX.35: 2 residues within 4Å: Chain E: V.301, W.304 Ligand excluded by PLIP HEX.36: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

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

CL.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cowgill, J. et al., Structure and dynamics of differential ligand binding in the human rho-type GABA A receptor. Neuron (2023)

Release Date

2023-08-30

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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