SMTL ID : 4pa4.2 (1 other biounit)

Structure of NavMS in complex with channel blocking compound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.02 Å

Oligo State

homo-tetramer

Ligands

4 x 2CV: HEGA-10(Non-covalent)

2CV.1: 6 residues within 4Å: Chain A: F.17, S.40, K.41 Chain D: P.68, N.69, W.71 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain D Hydrophobic interactions: A:F.17, D:W.71, D:W.71, D:W.71 Hydrogen bonds: D:N.69 2CV.2: 6 residues within 4Å: Chain A: P.68, N.69, W.71 Chain B: F.17, S.40, K.41 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:W.71, A:W.71, A:W.71, B:F.17 Hydrogen bonds: A:W.71 2CV.7: 6 residues within 4Å: Chain B: P.68, N.69, W.71 Chain C: F.17, S.40, K.41 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:W.71, B:W.71, B:W.71, C:F.17 Hydrogen bonds: B:N.69 2CV.8: 6 residues within 4Å: Chain C: P.68, N.69, W.71 Chain D: F.17, S.40, K.41 5 PLIP interactions: 1 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: D:F.17, C:W.71, C:W.71, C:W.71 Hydrogen bonds: C:W.71

2 x BR: BROMIDE ION(Non-covalent)

BR.3: 1 residues within 4Å: Chain A: M.50 Ligand excluded by PLIP BR.9: 1 residues within 4Å: Chain C: M.50 Ligand excluded by PLIP

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

NA.4: 3 residues within 4Å: Ligands: NA.6, NA.10, NA.12 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.53, C:E.53 NA.5: 3 residues within 4Å: Ligands: NA.6, NA.11, NA.12 No protein-ligand interaction detected (PLIP) NA.6: 5 residues within 4Å: Ligands: NA.4, NA.5, NA.10, NA.11, NA.12 No protein-ligand interaction detected (PLIP) NA.10: 3 residues within 4Å: Ligands: NA.4, NA.6, NA.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.53 NA.11: 3 residues within 4Å: Ligands: NA.5, NA.6, NA.12 No protein-ligand interaction detected (PLIP) NA.12: 5 residues within 4Å: Ligands: NA.4, NA.5, NA.6, NA.10, NA.11 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bagneris, C. et al., Prokaryotic NavMs channel as a structural and functional model for eukaryotic sodium channel antagonism. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-06-04

Peptides

Ion transport protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Ion transport protein

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