SMTL ID : 7p05.1

Cryo-EM structure of Pdr5 from Saccharomyces cerevisiae in inward-facing conformation with ADP/ATP and rhodamine 6G

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 22 residues within 4Å: Chain A: G.138, A.139, A.141, F.173, I.175, R.194, P.195, G.196, S.197, G.198, C.199, T.200, T.201, G.212, F.213, D.333, N.334, Y.367, Q.801, K.802, G.803, E.804 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:G.196, A:S.197, A:G.198, A:C.199, A:T.200, A:T.200, A:T.201, A:T.201, A:G.212, A:N.334, A:Q.801, A:E.804

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 15 residues within 4Å: Chain A: I.880, K.881, R.885, I.887, S.907, G.908, A.909, G.910, K.911, T.912, T.913, M.924, E.1036, T.1066, R.1086 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:R.885, A:R.885, A:G.908, A:A.909, A:G.910, A:K.911, A:T.912, A:T.912, A:T.913, A:T.913, A:E.1036 Salt bridges: A:K.911

1 x RHQ: RHODAMINE 6G(Non-covalent)

RHQ.3: 20 residues within 4Å: Chain A: M.526, G.529, N.530, F.566, F.569, S.570, S.571, L.572, L.573, E.574, I.614, M.667, A.670, L.674, N.1249, Q.1253, N.1357, S.1360, L.1361, T.1364 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.566, A:L.572, A:L.573, A:L.573, A:L.674, A:L.1361 Hydrogen bonds: A:N.530, A:S.570

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Harris, A. et al., Structure and efflux mechanism of the yeast pleiotropic drug resistance transporter Pdr5. Nat Commun (2021)

Release Date

2021-11-10

Peptides

Pleiotropic ABC efflux transporter of multiple drugs: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Pleiotropic ABC efflux transporter of multiple drugs

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