SMTL ID : 6dw0.1

Cryo-EM structure of the benzodiazepine-sensitive alpha1beta1gamma2S tri-heteromeric GABAA receptor in complex with GABA (Whole map)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-2-mer

Ligands

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.1: 3 residues within 4Å: Chain B: N.137 Chain E: D.114 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN.2 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:D.114, E:D.114

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN.2: 10 residues within 4Å: Chain A: S.138, N.139, V.141, G.142, D.158, W.161 Chain C: N.137 Chain D: V.131, K.137 Ligands: NAG-NAG-BMA-MAN.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.158

2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.3: 7 residues within 4Å: Chain D: N.174, T.176, K.217, V.219, K.221, S.236, R.238 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.221, D:K.221 NAG-NAG-BMA.5: 8 residues within 4Å: Chain E: N.174, K.217, V.219, S.220, K.221, S.236, F.237, R.238 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:S.220

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.4: 2 residues within 4Å: Chain D: N.105, H.144 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 4 residues within 4Å: Chain E: L.104, N.105, R.142, H.144 No protein-ligand interaction detected (PLIP)

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

ABU.7: 8 residues within 4Å: Chain C: F.91, R.93, T.156 Chain D: Y.122, S.181, Y.182, T.227, Y.230 7 PLIP interactions: 4 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:Y.182, D:Y.230, C:F.91 Hydrogen bonds: D:Y.122, D:S.181, C:T.156 Salt bridges: C:R.93 ABU.8: 8 residues within 4Å: Chain B: F.91, R.93, T.156 Chain E: Y.122, S.181, Y.182, T.227, Y.230 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain E Hydrophobic interactions: B:F.91 Hydrogen bonds: B:T.156, E:Y.122, E:S.181, E:T.227, E:T.227 Salt bridges: B:R.93 ABU.9: 6 residues within 4Å: Chain C: Y.186, S.231, T.233 Chain E: Y.87, Q.89, M.140 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain E Hydrogen bonds: C:T.233, E:Y.87, E:Y.87

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Phulera, S. et al., Cryo-EM structure of the benzodiazepine-sensitive alpha 1 beta 1 gamma 2S tri-heteromeric GABAAreceptor in complex with GABA. Elife (2018)

Release Date

2018-08-08

Peptides

Gamma-aminobutyric acid receptor subunit gamma-2: A
Gamma-aminobutyric acid receptor subunit alpha-1,Gamma-aminobutyric acid receptor subunit alpha-1: BC
Gamma-aminobutyric acid receptor subunit beta-1,Gamma-aminobutyric acid receptor subunit beta-1: DE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
C

C
A

D
E

E
B

Membrane

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

Gamma-aminobutyric acid receptor subunit alpha-1,Gamma-aminobutyric acid receptor subunit alpha-1

Gamma-aminobutyric acid receptor subunit beta-1,Gamma-aminobutyric acid receptor subunit beta-1

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