SMTL ID : 6fli.1

The active form of a pentameric ion channel (sTeLIC) gated by alkaline pH - Co-crystallization with 4-bromo cinnamic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-pentamer

Ligands

5 x BNG: nonyl beta-D-glucopyranoside(Non-covalent)

BNG.1: 12 residues within 4Å: Chain A: V.212, S.213, T.216, D.227, L.228, G.231, N.232 Chain B: I.226, D.227, G.230, G.231, L.234 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:I.226, B:L.234, B:L.234, A:V.212, A:T.216 Hydrogen bonds: A:G.231 BNG.3: 12 residues within 4Å: Chain B: V.212, S.213, T.216, D.227, L.228, G.231, N.232 Chain C: I.226, D.227, G.230, G.231, L.234 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:V.212, B:T.216, C:I.226, C:L.234, C:L.234 Hydrogen bonds: B:G.231 BNG.5: 12 residues within 4Å: Chain C: V.212, S.213, T.216, D.227, L.228, G.231, N.232 Chain D: I.226, D.227, G.230, G.231, L.234 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:V.212, C:T.216, D:I.226, D:L.234, D:L.234 Hydrogen bonds: C:G.231 BNG.7: 12 residues within 4Å: Chain D: V.212, S.213, T.216, D.227, L.228, G.231, N.232 Chain E: I.226, D.227, G.230, G.231, L.234 6 PLIP interactions: 3 interactions with chain E, 3 interactions with chain D Hydrophobic interactions: E:I.226, E:L.234, E:L.234, D:V.212, D:T.216 Hydrogen bonds: D:G.231 BNG.9: 13 residues within 4Å: Chain A: I.226, D.227, G.230, G.231, L.234 Chain E: V.212, S.213, T.216, D.227, L.228, G.231, N.232, L.235 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain E Hydrophobic interactions: A:I.226, A:L.234, A:L.234, E:V.212, E:T.216 Hydrogen bonds: E:D.227, E:G.231

5 x DQZ: 3-(4-bromophenyl)propanoic acid(Non-covalent)

DQZ.2: 9 residues within 4Å: Chain A: L.61, L.65, W.75, P.76, A.77, F.78, R.92, I.94, Y.104 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.61, A:F.78, A:Y.104, A:Y.104 Water bridges: A:R.92 Salt bridges: A:R.92 DQZ.4: 9 residues within 4Å: Chain B: L.61, L.65, W.75, P.76, A.77, F.78, R.92, I.94, Y.104 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.61, B:F.78, B:Y.104, B:Y.104 Salt bridges: B:R.92 DQZ.6: 9 residues within 4Å: Chain C: L.61, L.65, W.75, P.76, A.77, F.78, R.92, I.94, Y.104 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.61, C:L.61, C:F.78, C:Y.104, C:Y.104 Water bridges: C:R.92 Salt bridges: C:R.92 DQZ.8: 9 residues within 4Å: Chain D: L.61, L.65, W.75, P.76, A.77, F.78, R.92, I.94, Y.104 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:L.61, D:W.75, D:F.78, D:Y.104, D:Y.104 Water bridges: D:R.92 Salt bridges: D:R.92 DQZ.10: 9 residues within 4Å: Chain E: L.61, L.65, W.75, P.76, A.77, F.78, R.92, I.94, Y.104 7 PLIP interactions: 7 interactions with chain E Hydrophobic interactions: E:L.61, E:W.75, E:F.78, E:Y.104, E:Y.104 Water bridges: E:R.92 Salt bridges: E:R.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, H. et al., Crystal structures of a pentameric ion channel gated by alkaline pH show a widely open pore and identify a cavity for modulation. Proc. Natl. Acad. Sci. U.S.A. (2018)

Release Date

2018-05-16

Peptides

Cys-loop ligand-gated ion channel: 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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Cys-loop ligand-gated ion channel

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