Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Protein Workshop | Ligand Explorer

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: authors reported there is no experimental evidence

Macromolecule Content

• Total Structure Weight: 94314.49 
• Atom Count: 4251 
• Residue Count: 836 
• Unique protein chains: 1

6AK3

Crystal structure of the human prostaglandin E receptor EP3 bound to prostaglandin E2

• DOI: 10.2210/pdb6AK3/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Escherichia coli, Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): 9 


• Deposited: 2018-08-29 Released: 2018-12-05 
• Deposition Author(s): Morimoto, K., Suno, R., Iwata, S., Kobayashi, T.
• Funding Organization(s): Japan Agency for Medical Research and Development (AMED) 

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.9 Å
• R-Value Free: 0.295 
• R-Value Work: 0.251 

Literature

Crystal structure of the endogenous agonist-bound prostanoid receptor EP3.

Morimoto, K., Suno, R., Hotta, Y., Yamashita, K., Hirata, K., Yamamoto, M., Narumiya, S., Iwata, S., Kobayashi, T.

(2019) Nat. Chem. Biol. 15: 8-10

• PubMed: 30510192 

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Prostaglandin E2 receptor EP3 subtype,Soluble cytochrome b562	B, A	418	Escherichia coli, Homo sapiens This entity is chimeric	Mutation(s): 9  Gene Names: cybC, PTGER3
Membrane protein mpstruct	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  G Protein-Coupled Receptors (GPCRs)	Protein:  prostanoid receptor EP3 with bound PGE2
Find proteins for P0ABE7 (Escherichia coli) Go to UniProtKB:  P0ABE7
Find proteins for P43115 (Homo sapiens) Go to Gene View: PTGER3 Go to UniProtKB:  P43115

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
P2E	A, B	(Z)-7-[(1R,2R,3R)-3-hydroxy-2-[(E,3S)-3-hydroxyoct-1-enyl]-5-oxo-cyclopentyl]hept-5-enoic acid Prostaglandin E2 C20 H32 O5 XEYBRNLFEZDVAW-ARSRFYASSA-N
POV	A, B	(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate POPC C42 H82 N O8 P WTJKGGKOPKCXLL-PFDVCBLKSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.9 Å
• R-Value Free: 0.295 
• R-Value Work: 0.251 
• Space Group: P 1 2₁ 1

Unit Cell:

Length (Å)	Angle (°)
a = 66.090	α = 90.00
b = 42.280	β = 96.09
c = 161.300	γ = 90.00

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2018-08-29 
• Released Date: 2018-12-05 
• Deposition Author(s): Morimoto, K., Suno, R., Iwata, S., Kobayashi, T.

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Funding Organization	Location	Grant Number
Japan Agency for Medical Research and Development (AMED)	Japan	JP18gm0910007
Japan Agency for Medical Research and Development (AMED)	Japan	JP18am0101079

Revision History 

• Version 1.0: 2018-12-05
  Type: Initial release
• Version 1.1: 2018-12-12
  Type: Data collection, Structure summary
• Version 1.2: 2018-12-19
  Type: Data collection, Database references
• Version 1.3: 2019-01-30
  Type: Data collection, Database references