SMTL ID : 6a96.1

Cryo-EM structure of the human alpha5beta3 GABAA receptor in complex with GABA and Nb25

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-4-1-mer

Ligands

4 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.1: 9 residues within 4Å: Chain D: N.174, E.215, R.217, V.219, S.220, R.221, S.236, F.237, R.238 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.221, D:R.221 NAG-NAG-BMA-MAN-MAN-MAN.5: 12 residues within 4Å: Chain C: N.30, Y.31, D.113 Chain F: N.174, E.215, R.217, V.219, S.220, R.221, S.236, F.237, R.238 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:R.221, F:R.221 NAG-NAG-BMA-MAN-MAN-MAN.7: 11 residues within 4Å: Chain B: Y.31, D.113 Chain G: N.174, E.215, R.217, V.219, S.220, R.221, S.236, F.237, R.238 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain G Hydrophobic interactions: B:Y.31 Hydrogen bonds: G:R.221, G:R.221 NAG-NAG-BMA-MAN-MAN-MAN.9: 11 residues within 4Å: Chain A: Y.31, D.113 Chain H: N.174, E.215, R.217, V.219, S.220, R.221, S.236, F.237, R.238 2 PLIP interactions: 2 interactions with chain H Hydrogen bonds: H:R.221, H:R.221

4 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.2: 3 residues within 4Å: Chain D: N.105, R.142, H.144 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.6: 3 residues within 4Å: Chain F: N.105, R.142, H.144 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.8: 3 residues within 4Å: Chain G: N.105, R.142, H.144 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.10: 3 residues within 4Å: Chain H: N.105, R.142, H.144 No protein-ligand interaction detected (PLIP)

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.3: 2 residues within 4Å: Chain E: N.145, P.149 No protein-ligand interaction detected (PLIP)

1 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: 3 residues within 4Å: Chain E: N.198, N.236, T.245 No protein-ligand interaction detected (PLIP)

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

ABU.11: 6 residues within 4Å: Chain D: E.180, Y.182, F.225, T.227, Y.230 Chain E: R.101 4 PLIP interactions: 1 interactions with chain E, 3 interactions with chain D Salt bridges: E:R.101 Hydrophobic interactions: D:F.225, D:Y.230 Hydrogen bonds: D:E.180

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, S. et al., Cryo-EM structure of the human alpha 5 beta 3 GABAAreceptor. Cell Res. (2018)

Release Date

2018-10-03

Peptides

Nb25: ABC
Gamma-aminobutyric acid receptor subunit beta-3,Gamma-aminobutyric acid receptor subunit beta-3: DFGH
Gamma-aminobutyric acid receptor subunit alpha-5,Gamma-aminobutyric acid receptor subunit alpha-5: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
L

C
O

D
B

F
E

G
C

H
D

E
A

Membrane

We predict this structure to be a membrane protein.
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Nb25

Gamma-aminobutyric acid receptor subunit beta-3,Gamma-aminobutyric acid receptor subunit beta-3

Gamma-aminobutyric acid receptor subunit alpha-5,Gamma-aminobutyric acid receptor subunit alpha-5

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