6KUY | pdb_00006kuy

Crystal structure of the alpha2A adrenergic receptor in complex with a partial agonist

• PDB DOI: https://doi.org/10.2210/pdb6KUY/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2019-09-02 Released: 2019-12-04 
• Deposition Author(s): Qu, L., Zhou, Q.T., Wu, D., Zhao, S.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 
  0.298 (Depositor), 0.300 (DCC) 
• R-Value Work: 
  0.267 (Depositor), 0.270 (DCC) 
• R-Value Observed: 
  0.268 (Depositor) 

Starting Model: experimental

Literature

Crystal structures of the alpha2A adrenergic receptor in complex with a partial agonist

Qu, L., Zhou, Q.T., Wu, D., Zhao, S.W.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 44.84 kDa 
• Atom Count: 2,786 
• Modeled Residue Count: 370 
• Deposited Residue Count: 395 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha2A adrenergic receptor	A	395	Homo sapiens	Mutation(s): 0  Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P08913 (Homo sapiens) Explore P08913  Go to UniProtKB:  P08913
PHAROS:  P08913 GTEx:  ENSG00000150594

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
E39	C [auth A]	(2~{S})-4-fluoranyl-2-(1~{H}-imidazol-5-yl)-1-propan-2-yl-2,3-dihydroindole C14 H16 F N3 BIAKLJFRJUFBQE-AWEZNQCLSA-N
PEG	B [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free:  0.298 (Depositor), 0.300 (DCC) 
• R-Value Work:  0.267 (Depositor), 0.270 (DCC) 
• R-Value Observed: 0.268 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.21	α = 90
b = 71.62	β = 90
c = 286.25	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-12-04 
Deposition Author(s): Qu, L., Zhou, Q.T., Wu, D., Zhao, S.W.

Revision History  

• Version 1.0: 2019-12-04
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-10-16
  Changes: Structure summary