SMTL ID : 6vrh.1

Cryo-EM structure of the wild-type human serotonin transporter complexed with paroxetine and 8B6 Fab

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: G.207, N.208, H.223 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.207, A:N.208 NAG.4: 2 residues within 4Å: Chain A: N.217 Chain B: R.54 No protein-ligand interaction detected (PLIP)

1 x 8PR: Paroxetine(Non-covalent)

8PR.2: 15 residues within 4Å: Chain A: Y.95, A.96, D.98, A.169, I.172, A.173, F.335, S.336, G.338, F.341, S.438, T.439, G.442, T.497, V.501 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.172, A:I.172, A:F.341 Hydrogen bonds: A:A.96 pi-Stacking: A:F.341

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

1 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)

LMT.5: 15 residues within 4Å: Chain A: R.104, D.328, E.494, Y.495, G.498, P.499, T.503, F.556, L.557, S.559, P.561, Y.579, G.582, T.583, F.586 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.495, A:P.499, A:P.499, A:L.557, A:Y.579, A:Y.579, A:F.586 Hydrogen bonds: A:R.104, A:D.328, A:E.494, A:E.494, A:S.559, A:S.559

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Coleman, J.A. et al., Chemical and structural investigation of the paroxetine-human serotonin transporter complex. Elife (2020)

Release Date

2020-03-11

Peptides

Sodium-dependent serotonin transporter: A
8B6 antibody, light chain: B
8B6 antibody, heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
B

Membrane

We predict this structure to be a membrane protein.
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Sodium-dependent serotonin transporter

8B6 antibody, light chain

8B6 antibody, heavy chain

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