SMTL ID : 4ntx.2 (1 other biounit)

Structure of acid-sensing ion channel in complex with snake toxin and amiloride

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.27 Å

Oligo State

hetero-3-3-3-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: D.241, I.269, N.354 No protein-ligand interaction detected (PLIP) NAG.2: 1 residues within 4Å: Chain A: N.381 No protein-ligand interaction detected (PLIP) NAG.11: 3 residues within 4Å: Chain D: D.241, I.269, N.354 No protein-ligand interaction detected (PLIP) NAG.12: 1 residues within 4Å: Chain D: N.381 No protein-ligand interaction detected (PLIP) NAG.21: 3 residues within 4Å: Chain G: D.241, I.269, N.354 No protein-ligand interaction detected (PLIP) NAG.22: 1 residues within 4Å: Chain G: N.381 No protein-ligand interaction detected (PLIP)

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: R.297, E.301 Chain G: K.199 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain A: K.199 Chain D: R.297, E.301 Ligand excluded by PLIP CL.23: 3 residues within 4Å: Chain D: K.199 Chain G: R.297, E.301 Ligand excluded by PLIP

9 x NA: SODIUM ION(Non-functional Binders)

NA.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NA.5: 3 residues within 4Å: Chain A: T.224, D.225, T.227 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.225 NA.10: 2 residues within 4Å: Chain B: S.29 Chain C: F.68 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.29 NA.14: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NA.15: 3 residues within 4Å: Chain D: T.224, D.225, T.227 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:D.225 NA.20: 2 residues within 4Å: Chain E: S.29 Chain F: F.68 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:S.29 NA.24: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NA.25: 3 residues within 4Å: Chain G: T.224, D.225, T.227 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:T.224 NA.30: 2 residues within 4Å: Chain H: S.29 Chain I: F.68 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:F.68

3 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.6: 18 residues within 4Å: Chain A: L.83, E.85, R.178, Y.179, D.225, T.227, S.228, E.341 Chain G: F.161, R.163, G.164, T.202, G.203, G.205, E.207, D.395 Ligands: AMR.8, AMR.9 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain G Hydrogen bonds: A:E.85, A:S.228, A:S.228, G:R.163, G:G.164 P6G.16: 18 residues within 4Å: Chain A: F.161, R.163, G.164, T.202, G.203, G.205, E.207, D.395 Chain D: L.83, E.85, R.178, Y.179, D.225, T.227, S.228, E.341 Ligands: AMR.18, AMR.19 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain D Hydrogen bonds: A:R.163, A:G.164, D:E.85, D:S.228, D:S.228 P6G.26: 18 residues within 4Å: Chain D: F.161, R.163, G.164, T.202, G.203, G.205, E.207, D.395 Chain G: L.83, E.85, R.178, Y.179, D.225, T.227, S.228, E.341 Ligands: AMR.28, AMR.29 5 PLIP interactions: 3 interactions with chain G, 2 interactions with chain D Hydrogen bonds: G:E.85, G:S.228, G:S.228, D:R.163, D:G.164

9 x AMR: 3,5-DIAMINO-N-(AMINOIMINOMETHYL)-6-CHLOROPYRAZINECARBOXAMIDE(Non-covalent)

AMR.7: 4 residues within 4Å: Chain A: A.415, G.419 Chain D: R.52, Q.424 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.52 pi-Cation interactions: D:R.52 AMR.8: 6 residues within 4Å: Chain A: E.223, E.341 Chain G: F.161, G.164 Ligands: P6G.6, AMR.9 4 PLIP interactions: 3 interactions with chain G, 1 interactions with chain A Hydrogen bonds: G:G.164, G:G.164 pi-Stacking: G:F.161 Salt bridges: A:E.223 AMR.9: 10 residues within 4Å: Chain A: E.223, T.224, D.225, D.337, E.341 Chain C: N.83, R.87 Chain G: G.164 Ligands: P6G.6, AMR.8 6 PLIP interactions: 2 interactions with chain C, 4 interactions with chain A Hydrogen bonds: C:N.83, C:R.87, A:E.223 Salt bridges: A:D.225, A:D.337, A:E.341 AMR.17: 4 residues within 4Å: Chain D: A.415, G.419 Chain G: R.52, Q.424 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:R.52 pi-Cation interactions: G:R.52 AMR.18: 6 residues within 4Å: Chain A: F.161, G.164 Chain D: E.223, E.341 Ligands: P6G.16, AMR.19 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:G.164, A:G.164 pi-Stacking: A:F.161 Salt bridges: D:E.223 AMR.19: 10 residues within 4Å: Chain A: G.164 Chain D: E.223, T.224, D.225, D.337, E.341 Chain F: N.83, R.87 Ligands: P6G.16, AMR.18 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain F Hydrogen bonds: D:E.223, F:N.83, F:R.87 Salt bridges: D:D.225, D:D.337, D:E.341 AMR.27: 4 residues within 4Å: Chain A: R.52, Q.424 Chain G: A.415, G.419 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.52 pi-Cation interactions: A:R.52 AMR.28: 6 residues within 4Å: Chain D: F.161, G.164 Chain G: E.223, E.341 Ligands: P6G.26, AMR.29 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain G Hydrogen bonds: D:G.164, D:G.164 pi-Stacking: D:F.161 Salt bridges: G:E.223 AMR.29: 10 residues within 4Å: Chain D: G.164 Chain G: E.223, T.224, D.225, D.337, E.341 Chain I: N.83, R.87 Ligands: P6G.26, AMR.28 6 PLIP interactions: 4 interactions with chain G, 2 interactions with chain I Hydrogen bonds: G:E.223, I:N.83, I:R.87 Salt bridges: G:D.225, G:D.337, G:E.341

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baconguis, I. et al., X-ray structure of Acid-sensing ion channel 1-snake toxin complex reveals open state of a na(+)-selective channel. Cell(Cambridge,Mass.) (2014)

Release Date

2014-02-19

Peptides

Acid-sensing ion channel 1: ADG
Neurotoxin MitTx-alpha: BEH
Basic phospholipase A2 homolog Tx-beta: CFI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
A

G
A

B
B

E
B

H
B

C
C

F
C

I
C

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Acid-sensing ion channel 1

Neurotoxin MitTx-alpha

Basic phospholipase A2 homolog Tx-beta

Related Entries With Identical Sequence