SMTL ID : 6ssp.2 (1 other biounit)

Structure of the pentameric ligand-gated ion channel ELIC in complex with a NAM nanobody

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.25 Å

Oligo State

hetero-5-1-mer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: Q.27, D.109 Chain E: D.154 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.109 CA.2: 4 residues within 4Å: Chain A: I.148, N.150, D.154 Chain B: D.109 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.154, A:D.154 CA.4: 3 residues within 4Å: Chain B: N.150, D.154 Chain C: D.109 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Metal complexes: B:D.154, C:D.109 CA.7: 3 residues within 4Å: Chain C: N.150, D.154 Chain D: D.109 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:D.109

5 x UMQ: UNDECYL-MALTOSIDE(Non-covalent)

UMQ.3: 7 residues within 4Å: Chain A: T.255, Q.260, A.264, G.267, S.268, I.307 Chain E: W.202 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: A:I.307 Hydrogen bonds: A:T.255, E:W.202 UMQ.5: 7 residues within 4Å: Chain A: W.202 Chain B: T.255, Q.260, I.263, A.264, G.267, L.311 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.263, B:A.264, B:L.311 Hydrogen bonds: B:T.255, A:W.202 UMQ.6: 9 residues within 4Å: Chain B: S.198, W.202 Chain C: T.255, Q.260, I.263, A.264, G.267, I.307, L.311 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:I.263, C:I.307, C:L.311 Hydrogen bonds: C:T.255, C:Q.260 UMQ.8: 8 residues within 4Å: Chain C: S.198, W.202 Chain D: T.255, Q.260, I.263, A.264, S.268, F.304 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:I.263, D:A.264, D:F.304 Hydrogen bonds: D:T.255, D:T.255 UMQ.9: 9 residues within 4Å: Chain D: E.152, W.202 Chain E: R.113, T.255, Q.260, A.264, S.268, F.304, L.311 8 PLIP interactions: 7 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: E:Q.260, E:A.264, E:F.304, E:L.311 Hydrogen bonds: E:R.113, E:T.255, E:Q.260, D:W.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brams, M. et al., Modulation of the Erwinia ligand-gated ion channel (ELIC) and the 5-HT 3 receptor via a common vestibule site. Elife (2020)

Release Date

2020-02-12

Peptides

Cys-loop ligand-gated ion channel: ABCDE
NANOBODY 21: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
G

C
H

D
I

E
J

F
L

Membrane

We predict this structure to be a membrane protein.
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Cys-loop ligand-gated ion channel

NANOBODY 21

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