SMTL ID : 4djh.2 (1 other biounit)

Structure of the human kappa opioid receptor in complex with JDTic

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-dimer

Ligands

2 x JDC: (3R)-7-hydroxy-N-{(2S)-1-[(3R,4R)-4-(3-hydroxyphenyl)-3,4-dimethylpiperidin-1-yl]-3-methylbutan-2-yl}-1,2,3,4-tetrahydroisoquinoline-3-carboxamide(Non-covalent)

JDC.1: 19 residues within 4Å: Chain A: V.71, T.74, Q.78, W.87, V.97, L.98, D.101, Y.102, M.105, C.173, K.190, V.193, W.409, I.412, I.416, Y.434, I.438, G.441, Y.442 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.71, A:Q.78, A:W.87, A:V.97, A:L.98, A:D.101, A:Y.102, A:W.409, A:I.412, A:I.416, A:I.416, A:Y.442 Salt bridges: A:D.101 JDC.6: 20 residues within 4Å: Chain B: V.71, T.74, Q.78, W.87, V.97, L.98, D.101, Y.102, M.105, C.173, K.190, V.193, W.409, I.412, H.413, I.416, Y.434, I.438, G.441, Y.442 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:W.87, B:V.97, B:L.98, B:D.101, B:Y.102, B:V.193, B:W.409, B:I.412, B:I.416, B:I.416, B:Y.442 Hydrogen bonds: B:K.190 Water bridges: B:D.101, B:D.101 Salt bridges: B:D.101

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

OLC.2: 13 residues within 4Å: Chain A: Y.60, D.118, I.121, F.132, K.137, I.141, C.144, I.145 Chain B: W.184, L.187, F.188, I.191 Ligands: OLC.3 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:I.141, B:F.188, B:I.191 Hydrogen bonds: A:Y.60, A:D.118 OLC.3: 16 residues within 4Å: Chain A: V.117, Y.120, I.121, C.124, H.125, P.126, V.127, K.128, F.132 Chain B: L.187, I.191, A.420, L.421, G.422, S.423 Ligands: OLC.2 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.120, A:I.121, A:F.132, B:L.187, B:I.191 Hydrogen bonds: A:C.124, A:H.125, A:V.127

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 3 residues within 4Å: Chain A: S.183, W.184, L.421 No protein-ligand interaction detected (PLIP) PEG.5: 6 residues within 4Å: Chain A: T.55, T.57, R.119, R.133, R.392, I.394 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.55, A:T.55, A:T.57, A:T.57, A:R.133, A:R.133, A:R.392

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.7: 5 residues within 4Å: Chain B: I.232, E.234, G.235, R.237, Y.241 2 PLIP interactions: 2 interactions with chain B Water bridges: B:Y.241 Salt bridges: B:R.237

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, H. et al., tructure of the human kappa-opioid receptor in complex with JDTic. Nature (2012)

Release Date

2012-03-21

Peptides

Kappa-type opioid receptor, Lysozyme: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Membrane

We predict this structure to be a membrane protein.
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Kappa-type opioid receptor, Lysozyme

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