SMTL ID : 9hco.1

Outward-open structure of human serotonin transporter bound to vilazodone

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x YG7: 5-{4-[4-(5-cyano-1H-indol-3-yl)butyl]piperazin-1-yl}-1-benzofuran-2-carboxamide(Non-covalent)

YG7.1: 24 residues within 4Å: Chain A: Y.95, D.98, G.100, R.104, I.108, A.169, I.172, A.173, Y.175, Y.176, N.177, D.328, A.331, Q.332, F.335, F.341, V.343, S.438, T.439, G.442, L.443, V.446, T.497, F.556 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.95, A:A.169, A:I.172, A:Y.176, A:F.335, A:F.335 Hydrogen bonds: A:N.177 Water bridges: A:F.335, A:F.341, A:G.442 Salt bridges: A:D.98 pi-Stacking: A:F.335 pi-Cation interactions: A:R.104

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

NA.2: 8 residues within 4Å: Chain A: G.94, V.97, D.98, Y.176, L.434, G.435, D.437, S.438 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.434, A:S.438 NA.4: 5 residues within 4Å: Chain A: A.96, V.97, D.98, N.101, S.336 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.98, A:N.368

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

CL.3: 6 residues within 4Å: Chain A: N.101, F.105, Y.121, Q.332, S.336, S.372 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kalenderoglou, I.E. et al., Structural basis of serotonin reuptake inhibition by a dual mode orthosteric/allosteric antidepressant. To Be Published

Release Date

2025-09-17

Peptides

Sodium-dependent serotonin transporter: A
15B8 Fab heavy chain: B
15B8 Fab light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Membrane

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

Sodium-dependent serotonin transporter

15B8 Fab heavy chain

15B8 Fab light chain

Related Entries With Identical Sequence