SMTL ID : 6tpj.2 (1 other biounit)

Crystal structure of the Orexin-2 receptor in complex with suvorexant at 2.76 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.74 Å

Oligo State

monomer

Ligands

1 x SUV: [(7R)-4-(5-chloro-1,3-benzoxazol-2-yl)-7-methyl-1,4-diazepan-1-yl][5-methyl-2-(2H-1,2,3-triazol-2-yl)phenyl]methanone(Non-covalent)

SUV.1: 21 residues within 4Å: Chain A: C.118, A.121, T.122, V.125, W.131, I.141, P.142, Q.145, T.146, V.149, Q.198, M.202, E.223, H.235, F.238, Y.485, I.488, N.492, H.518, V.521, Y.522 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.122, A:I.141, A:Q.145, A:Q.145 Hydrogen bonds: A:N.492

3 x NH4: AMMONIUM ION(Non-functional Binders)

NH4.2: 4 residues within 4Å: Chain A: L.391, V.392, E.395 Ligands: NH4.4 No protein-ligand interaction detected (PLIP) NH4.3: 2 residues within 4Å: Chain A: G.266, L.391 No protein-ligand interaction detected (PLIP) NH4.4: 4 residues within 4Å: Chain A: I.303, Y.374, E.395 Ligands: NH4.2 No protein-ligand interaction detected (PLIP)

21 x OLA: OLEIC ACID(Non-covalent)(Non-functional Binders)

OLA.5: 2 residues within 4Å: Chain A: E.283, S.287 Ligand excluded by PLIP OLA.6: 6 residues within 4Å: Chain A: C.168, K.260, R.264, P.388, F.389 Ligands: OLA.15 Ligand excluded by PLIP OLA.7: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OLA.8: 3 residues within 4Å: Chain A: N.182, V.185, I.186 Ligand excluded by PLIP OLA.9: 2 residues within 4Å: Chain A: S.136, K.139 Ligand excluded by PLIP OLA.10: 2 residues within 4Å: Chain A: I.73, I.74 Ligand excluded by PLIP OLA.11: 6 residues within 4Å: Chain A: V.480, I.483, C.484, A.523, A.527, I.530 Ligand excluded by PLIP OLA.12: 2 residues within 4Å: Chain A: I.483, L.520 Ligand excluded by PLIP OLA.13: 2 residues within 4Å: Chain A: S.325, K.354 Ligand excluded by PLIP OLA.14: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OLA.15: 5 residues within 4Å: Chain A: F.386, P.388, V.408, G.409 Ligands: OLA.6 Ligand excluded by PLIP OLA.16: 2 residues within 4Å: Chain A: N.533, K.544 Ligand excluded by PLIP OLA.17: 3 residues within 4Å: Chain A: I.116, T.117, F.133 Ligand excluded by PLIP OLA.18: 6 residues within 4Å: Chain A: I.73, F.76, P.120, L.123, V.124, T.128 Ligand excluded by PLIP OLA.19: 6 residues within 4Å: Chain A: I.303, R.305, I.337, G.338, K.339, L.365 Ligand excluded by PLIP OLA.20: 1 residues within 4Å: Chain A: K.139 Ligand excluded by PLIP OLA.21: 2 residues within 4Å: Chain A: I.200, V.201 Ligand excluded by PLIP OLA.22: 3 residues within 4Å: Chain A: L.80, I.81, V.84 Ligand excluded by PLIP OLA.23: 4 residues within 4Å: Chain A: V.78, G.82, L.85, F.543 Ligand excluded by PLIP OLA.24: 2 residues within 4Å: Chain A: F.258, R.472 Ligand excluded by PLIP OLA.25: 1 residues within 4Å: Chain A: F.132 Ligand excluded by PLIP

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

PG4.26: 5 residues within 4Å: Chain A: C.221, K.495, F.501, Y.511, F.514 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:C.221, A:Y.511

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,Hypocretin receptor-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Membrane

We predict this structure to be a membrane protein.
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Orexin receptor type 2,GlgA glycogen synthase,Hypocretin receptor-2

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