SMTL ID : 6tpn.1

Crystal structure of the Orexin-2 receptor in complex with HTL6641 at 2.61 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.61 Å

Oligo State

monomer

Ligands

1 x NU8: 2-(5,6-dimethoxypyridin-3-yl)-1,1-bis(oxidanylidene)-4-[[2,4,6-tris(fluoranyl)phenyl]methyl]pyrido[2,3-e][1,2,4]thiadiazin-3-one(Non-covalent)

NU8.1: 17 residues within 4Å: Chain A: T.122, W.131, P.142, Q.145, T.146, V.149, Q.198, M.202, C.221, H.235, F.238, Y.485, I.488, S.489, N.492, H.518, Y.522 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:T.146, A:V.149, A:F.238, A:I.488 Hydrogen bonds: A:Q.198, A:N.492 Water bridges: A:H.518 pi-Stacking: A:F.238 Halogen bonds: A:Q.145, A:N.492

2 x NO3: NITRATE ION(Non-functional Binders)

NO3.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NO3.3: 5 residues within 4Å: Chain A: D.282, S.444, D.445, L.446, R.450 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.282, A:S.444, A:L.446, A:R.450

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 7 residues within 4Å: Chain A: D.222, K.495, R.496, F.501, V.510, Y.511, F.514 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.222, A:K.495, A:R.496 PG4.5: 2 residues within 4Å: Chain A: P.170, R.412 No protein-ligand interaction detected (PLIP)

4 x OLA: OLEIC ACID(Non-covalent)

OLA.6: 7 residues within 4Å: Chain A: W.66, V.67, L.68, A.70, G.71, F.516, W.519 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.67, A:L.68, A:F.516, A:W.519 OLA.7: 4 residues within 4Å: Chain A: K.139, Y.143, A.199, I.200 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.199, A:I.200 OLA.8: 6 residues within 4Å: Chain A: C.158, L.161, R.179, S.183, V.190, V.241 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.190, A:V.241, A:V.241 Hydrogen bonds: A:S.183 Salt bridges: A:R.179 OLA.9: 5 residues within 4Å: Chain A: W.164, Y.165, H.169, L.253, Q.256 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.164 Salt bridges: A:H.169

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rappas, M. et al., Comparison of Orexin 1 and Orexin 2 Ligand Binding Modes Using X-ray Crystallography and Computational Analysis. J.Med.Chem. (2020)

Release Date

2020-01-01

Peptides

Orexin receptor type 2,GlgA glycogen synthase,Orexin receptor type 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Orexin receptor type 2,GlgA glycogen synthase,Orexin receptor type 2

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