SMTL ID : 9fgd.1

Cryo-EM structure of the full-length alpha1beta3gamma2 GABA(A) receptor in SMALPs without PIP2 and in complex with Mb38

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-1-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[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-MAN-MAN-MAN.1: 15 residues within 4Å: Chain A: N.146 Chain C: S.139, N.140, M.141, V.142, G.143, K.144, W.162, P.166 Chain D: N.123, S.127, K.141, K.152 Ligands: NAG-NAG-BMA-MAN-MAN.4, NAG-NAG-BMA-MAN-MAN.4 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.141, D:K.141

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.2: 3 residues within 4Å: Chain B: P.103, N.105, H.144 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 3 residues within 4Å: Chain E: P.103, N.105, H.144 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-[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-MAN-MAN.3: 7 residues within 4Å: Chain B: N.174, R.217, V.219, R.221, S.236, F.237, R.238 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN-MAN.6: 7 residues within 4Å: Chain E: N.174, R.217, V.219, R.221, S.236, F.237, R.238 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:R.217, E:R.221

1 x NAG- NAG- BMA- MAN- MAN: 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.4: 5 residues within 4Å: Chain D: N.146, P.150 Chain E: Q.115 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.1, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.1 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:Q.115

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

NAG.7: 4 residues within 4Å: Chain C: K.223, R.224, S.226, N.247 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.224, C:S.226, C:S.226

1 x D10: DECANE(Non-covalent)

D10.8: 4 residues within 4Å: Chain C: W.295 Chain D: A.340, Y.344, F.345 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:A.340, D:Y.344, D:Y.344, D:F.345, C:W.295, C:W.295

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mihaylov, D.B. et al., Cryo-EM structure of the full-length alpha1beta3gamma2 GABA(A) receptor in SMALPs without PIP2 and in complex with Mb38. To Be Published

Release Date

2025-06-04

Peptides

Gamma-aminobutyric acid receptor subunit alpha-1: AD
Gamma-aminobutyric acid receptor subunit beta-3: BE
Gamma-aminobutyric acid receptor subunit gamma-2: C
Megabody-38,Outer membrane protein: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

B
B

E
E

C
C

F
F

Membrane

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

Gamma-aminobutyric acid receptor subunit beta-3

Gamma-aminobutyric acid receptor subunit gamma-2

Megabody-38,Outer membrane protein

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