SMTL ID : 4rwd.1 (1 other biounit)

XFEL structure of the human delta opioid receptor in complex with a bifunctional peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

1 x DI7- DI8- PHE- PHE- NH2: bifunctional peptide(Non-covalent)

DI7-DI8-PHE-PHE-NH2.1: 14 residues within 4Å: Chain A: Q.178, L.198, D.201, Y.202, M.205, M.272, L.273, K.287, V.290, I.350, V.354, W.357, I.377, Y.381 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.198, A:D.201, A:Y.202, A:I.350, A:V.354 Hydrogen bonds: A:D.201, A:L.273, A:L.273 pi-Stacking: A:W.357

3 x OLA: OLEIC ACID(Non-covalent)

OLA.2: 1 residues within 4Å: Chain A: I.123 No protein-ligand interaction detected (PLIP) OLA.4: 1 residues within 4Å: Chain A: F.353 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.353, A:F.353 OLA.7: 5 residues within 4Å: Chain A: S.117, A.120, L.121, A.124, P.367 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.120, A:L.121, A:A.124

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

NA.3: 3 residues within 4Å: Chain A: D.168, N.204, S.208 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.204, A:S.208, A:S.208

2 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLC.5: 9 residues within 4Å: Chain A: I.147, K.154, I.159, F.162, N.163, L.166, K.239, N.242, W.246 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.166, A:W.246 Hydrogen bonds: A:K.154, A:N.242 OLC.6: 6 residues within 4Å: Chain A: F.210, M.214, I.241, C.244, I.245, L.248 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.210, A:F.210, A:F.210

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fenalti, G. et al., Structural basis for bifunctional peptide recognition at human delta-opioid receptor. Nat.Struct.Mol.Biol. (2015)

Release Date

2015-01-14

Peptides

Soluble cytochrome b562,Delta-type opioid receptor: 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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Soluble cytochrome b562,Delta-type opioid receptor

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