4ZJ8

Structures of the human OX1 orexin receptor bound to selective and dual antagonists


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.751 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.223 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure and ligand-binding mechanism of the human OX1 and OX2 orexin receptors.

Yin, J.Babaoglu, K.Brautigam, C.A.Clark, L.Shao, Z.Scheuermann, T.H.Harrell, C.M.Gotter, A.L.Roecker, A.J.Winrow, C.J.Renger, J.J.Coleman, P.J.Rosenbaum, D.M.

(2016) Nat.Struct.Mol.Biol. 23: 293-299

  • DOI: 10.1038/nsmb.3183
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The orexin (also known as hypocretin) G protein-coupled receptors (GPCRs) regulate sleep and other behavioral functions in mammals, and are therapeutic targets for sleep and wake disorders. The human receptors hOX1R and hOX2R, which are 64% identical ...

    The orexin (also known as hypocretin) G protein-coupled receptors (GPCRs) regulate sleep and other behavioral functions in mammals, and are therapeutic targets for sleep and wake disorders. The human receptors hOX1R and hOX2R, which are 64% identical in sequence, have overlapping but distinct physiological functions and potential therapeutic profiles. We determined structures of hOX1R bound to the OX1R-selective antagonist SB-674042 and the dual antagonist suvorexant at 2.8-Å and 2.75-Å resolution, respectively, and used molecular modeling to illuminate mechanisms of antagonist subtype selectivity between hOX1R and hOX2R. The hOX1R structures also reveal a conserved amphipathic α-helix, in the extracellular N-terminal region, that interacts with orexin-A and is essential for high-potency neuropeptide activation at both receptors. The orexin-receptor crystal structures are valuable tools for the design and development of selective orexin-receptor antagonists and agonists.


    Organizational Affiliation

    Department of Medicinal Chemistry, Merck Research Laboratories, West Point, Pennsylvania, USA.,Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, Texas, USA.,Department of Neuroscience, Merck Research Laboratories, West Point, Pennsylvania, USA.,Department of Structural Chemistry, Merck Research Laboratories, West Point, Pennsylvania, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
human OX1R fusion protein to P.abysii glycogen synthase
A
553Pyrococcus abyssi (strain GE5 / Orsay)Homo sapiens
This entity is chimeric
Mutation(s): 1 
Gene Names: HCRTR1
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
G Protein-Coupled Receptors (GPCRs)
Protein: 
OX1 orexin receptor with bound suvorexant
Find proteins for Q9V2J8 (Pyrococcus abyssi (strain GE5 / Orsay))
Go to UniProtKB:  Q9V2J8
Find proteins for O43613 (Homo sapiens)
Go to Gene View: HCRTR1
Go to UniProtKB:  O43613
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
OLA
Query on OLA

Download SDF File 
Download CCD File 
A
OLEIC ACID
C18 H34 O2
ZQPPMHVWECSIRJ-KTKRTIGZSA-N
 Ligand Interaction
SUV
Query on SUV

Download SDF File 
Download CCD File 
A
[(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
suvorexant
C23 H23 Cl N6 O2
JYTNQNCOQXFQPK-MRXNPFEDSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
SUVKi: 0.6 - 1.7 nM (91) BINDINGDB
SUVIC50: 50 nM (91) BINDINGDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.751 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.223 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 63.242α = 90.00
b = 64.992β = 90.00
c = 181.478γ = 90.00
Software Package:
Software NamePurpose
Blu-Icedata collection
HKL-3000data scaling
HKL-3000data reduction
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-03-09
    Type: Initial release
  • Version 1.1: 2016-03-23
    Type: Database references
  • Version 1.2: 2016-04-13
    Type: Database references