SMTL ID : 6m0z.1

X-ray structure of Drosophila dopamine transporter with NET-like mutations (D121G/S426M/F471L) in L-norepinephrine bound form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.88 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.1: 7 residues within 4Å: Chain A: V.10, L.13, L.205, Y.208, L.212, I.286, I.293 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.13, A:L.205, A:L.212, A:I.286, A:I.286, A:I.293

1 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.2: 9 residues within 4Å: Chain A: L.49, A.50, I.54, Y.277, F.285, F.292, G.451, Y.453, W.454 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.49, A:I.54, A:F.285, A:F.292, A:Y.453, A:W.454 Hydrogen bonds: A:G.451

1 x DMU: DECYL-BETA-D-MALTOPYRANOSIDE(Non-covalent)

DMU.3: 6 residues within 4Å: Chain A: R.109, F.112, A.113, Y.154, L.176, I.180 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.112, A:L.176, A:I.180 Hydrogen bonds: A:A.113, A:Y.154 Salt bridges: A:R.109

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

NA.4: 5 residues within 4Å: Chain A: A.20, D.22, N.25, S.255, N.287 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.22, A:N.25 NA.5: 5 residues within 4Å: Chain A: G.18, V.21, L.352, D.355, S.356 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.352, A:S.356

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

CL.6: 4 residues within 4Å: Chain A: Y.45, Q.251, S.255, S.291 Ligand excluded by PLIP

1 x LNR: L-NOREPINEPHRINE(Non-covalent)

LNR.7: 11 residues within 4Å: Chain A: F.19, A.20, D.22, A.93, V.96, Y.100, F.254, S.255, F.260, S.356, G.360 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.96, A:F.260 Hydrogen bonds: A:F.254

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pidathala, S. et al., Structural basis of norepinephrine recognition and transport inhibition in neurotransmitter transporters. Nat Commun (2021)

Release Date

2021-02-17

Peptides

Sodium-dependent dopamine transporter: A
Antibody fragment (Fab) 9D5 Light chain: B
Antibody fragment (Fab) 9D5 heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
L

C
H

Membrane

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

Antibody fragment (Fab) 9D5 Light chain

Antibody fragment (Fab) 9D5 heavy chain

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