SMTL ID : 5cfb.1

Crystal Structure of Human Glycine Receptor alpha-3 Bound to Strychnine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.04 Å

Oligo State

homo-pentamer

Ligands

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.1: 3 residues within 4Å: Chain C: P.35, P.36, N.38 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain D: N.31, P.35, P.36, N.38 No protein-ligand interaction detected (PLIP)

5 x SY9: STRYCHNINE(Non-covalent)

SY9.3: 12 residues within 4Å: Chain A: E.157, F.159, G.160, Y.202, T.204, F.207 Chain B: F.63, R.65, L.117, R.119, L.127, S.129 10 PLIP interactions: 6 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.159, A:Y.202, A:Y.202, A:F.207, A:F.207, B:F.63, B:R.65, B:L.117 Salt bridges: A:E.157 Hydrogen bonds: B:S.129 SY9.6: 13 residues within 4Å: Chain B: E.157, F.159, G.160, Y.202, T.204, F.207 Chain C: F.44, F.63, R.65, L.117, R.119, L.127, S.129 9 PLIP interactions: 3 interactions with chain C, 6 interactions with chain B Hydrophobic interactions: C:F.63, C:R.65, C:L.117, B:F.159, B:Y.202, B:Y.202, B:F.207, B:F.207 Salt bridges: B:E.157 SY9.7: 11 residues within 4Å: Chain C: E.157, F.159, Y.202, T.204, F.207 Chain D: F.44, F.63, R.65, L.117, L.127, S.129 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:F.159, C:Y.202, C:T.204, C:F.207, C:F.207, D:F.63, D:L.117 Salt bridges: C:E.157 SY9.8: 12 residues within 4Å: Chain D: E.157, F.159, Y.202, T.204, F.207 Chain E: F.44, F.63, R.65, L.117, R.119, L.127, S.129 10 PLIP interactions: 6 interactions with chain D, 4 interactions with chain E Hydrophobic interactions: D:Y.202, D:Y.202, D:T.204, D:F.207, D:F.207, E:F.63, E:L.117, E:L.127 Salt bridges: D:E.157 Hydrogen bonds: E:S.129 SY9.9: 12 residues within 4Å: Chain A: F.44, F.63, R.65, L.117, R.119, L.127, S.129 Chain E: E.157, F.159, Y.202, T.204, F.207 10 PLIP interactions: 6 interactions with chain E, 4 interactions with chain A Hydrophobic interactions: E:F.159, E:Y.202, E:Y.202, E:F.207, E:F.207, A:F.63, A:R.65, A:L.117, A:L.127 Salt bridges: E:E.157

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

NAG.4: 4 residues within 4Å: Chain A: N.31, P.35, P.36, N.38 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.35 Hydrogen bonds: A:N.31 NAG.5: 3 residues within 4Å: Chain B: P.35, P.36, N.38 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:P.35 NAG.10: 3 residues within 4Å: Chain E: P.35, P.36, N.38 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:P.35

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, X. et al., Crystal structure of human glycine receptor-alpha 3 bound to antagonist strychnine. Nature (2015)

Release Date

2015-09-30

Peptides

Glycine receptor subunit alpha-3,Glycine receptor subunit alpha-3: 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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Glycine receptor subunit alpha-3,Glycine receptor subunit alpha-3

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