Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 17.82 kDa 
• Atom Count: 1210 
• Modelled Residue Count: 134 
• Deposited Residue Count: 155 
• Unique protein chains: 2

5OTT

Extracellular domain of GLP-1 receptor in complex with exendin-4 variant Gly2Hcs/Thr5Hcs

• DOI: 10.2210/pdb5OTT/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens, Heloderma suspectum
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2017-08-22 Released: 2018-07-04 
• Deposition Author(s): Mortensen, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.92 Å
• R-Value Free: 0.209 
• R-Value Work: 0.180 
• R-Value Observed: 0.182 

Literature

alpha-Helix or beta-Turn? An Investigation into N-Terminally Constrained Analogues of Glucagon-like Peptide 1 (GLP-1) and Exendin-4.

Oddo, A., Mortensen, S., Thogersen, H., De Maria, L., Hennen, S., McGuire, J.N., Kofoed, J., Linderoth, L., Reedtz-Runge, S.

(2018) Biochemistry 57: 4148-4154

• PubMed: 29877701 
• DOI: 10.1021/acs.biochem.8b00105
• Primary Citation of Related Structures:  
  5OTU, 5OTT, 5OTW, 5OTV, 5OTX


• PubMed Abstract: 
  

Peptide agonists acting on the glucagon-like peptide 1 receptor (GLP-1R) promote glucose-dependent insulin release and therefore represent important therapeutic agents for type 2 diabetes (T2D). Previous data indicated that an N-terminal type II β-turn motif might be an important feature for agonists acting on the GLP-1R. In contrast, recent publications reporting the structure of the full-length GLP-1R have shown the N-terminus of receptor-bound agonists in an α-helical conformation. To reconcile these conflicting results, we prepared N-terminally constrained analogues of glucagon-like peptide 1 (GLP-1) and exendin-4 and evaluated their receptor affinity and functionality in vitro; we then examined their crystal structures in complex with the extracellular domain of the GLP-1R and used molecular modeling and molecular dynamics simulations for further investigations. We report that the peptides' N-termini in all determined crystal structures adopted a type II β-turn conformation, but in vitro potency varied several thousand-fold across the series. Potency correlated better with α-helicity in our computational model, although we have found that the energy barrier between the two mentioned conformations is low in our most potent analogues and the flexibility of the N-terminus is highlighted by the dynamics simulations.

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Organizational Affiliation: 

Global Research , Novo Nordisk A/S , Novo Nordisk Park , 2760 Måløv , Denmark.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glucagon-like peptide 1 receptor	A	116	Homo sapiens	Mutation(s): 0  Gene Names: GLP1R
Find proteins for P43220 (Homo sapiens) Explore P43220  Go to UniProtKB:  P43220
NIH Common Fund Data Resources
PHAROS:  P43220 GTEx:  ENSG00000112164

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Exendin-4	B	39	Heloderma suspectum	Mutation(s): 2
Find proteins for P26349 (Heloderma suspectum) Explore P26349  Go to UniProtKB:  P26349

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.92 Å
• R-Value Free: 0.209 
• R-Value Work: 0.180 
• R-Value Observed: 0.182 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.69	α = 90
b = 62.92	β = 90
c = 118.55	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2017-08-22 
• Released Date: 2018-07-04 
Deposition Author(s): Mortensen, S.

Revision History  

• Version 1.0: 2018-07-04
  Type: Initial release
  
• Version 1.1: 2018-07-25
  Changes: Data collection, Database references