Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - ABC Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer -A2B 

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

Biological Assembly Evidence: authors reported there is no experimental evidence

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - ABC Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer -A2B 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 232295.92 
• Atom Count: 15040 
• Residue Count: 2038 
• Unique protein chains: 3

5XF1

Structure of the Full-length glucagon class B G protein-coupled receptor

• DOI: 10.2210/pdb5XF1/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens, Enterobacteria phage T4
• Expression System: Spodoptera frugiperda, Homo sapiens
• Mutation(s): 2 


• Deposited: 2017-04-06 Released: 2017-05-24 
• Deposition Author(s): Zhang, H., Qiao, A., Yang, D., Yang, L., Dai, A., de Graaf, C., Reedtz-Runge, S., Dharmarajan, V., Zhang, H., Han, G.W., Grant, T., Sierra, R., Weierstall, U., Nelson, G., Liu, W., Wu, Y., Ma, L., Cai, X., Lin, G., Wu, X., Geng, Z., Dong, Y., Song, G., Griffin, P., Lau, J., Cherezov, V., Yang, H., Hanson, M., Stevens, R., Jiang, H., Wang, M., Zhao, Q., Wu, B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.19 Å
• R-Value Free: 0.231 
• R-Value Work: 0.205 

Literature

Structure of the full-length glucagon class B G-protein-coupled receptor.

Zhang, H., Qiao, A., Yang, D., Yang, L., Dai, A., de Graaf, C., Reedtz-Runge, S., Dharmarajan, V., Zhang, H., Han, G.W., Grant, T.D., Sierra, R.G., Weierstall, U., Nelson, G., Liu, W., Wu, Y., Ma, L., Cai, X., Lin, G., Wu, X., Geng, Z., Dong, Y., Song, G., Griffin, P.R., Lau, J., Cherezov, V., Yang, H., Hanson, M.A., Stevens, R.C., Zhao, Q., Jiang, H., Wang, M.W., Wu, B.

(2017) Nature 546: 259-264

• PubMed: 28514451 
• DOI: 10.1038/nature22363
• Primary Citation of Related Structures:  
  5XEZ


• PubMed Abstract: 
  

The human glucagon receptor, GCGR, belongs to the class B G-protein-coupled receptor family and plays a key role in glucose homeostasis and the pathophysiology of type 2 diabetes. Here we report the 3.0 Å crystal structure of full-length GCGR containing both the extracellular domain and transmembrane domain in an inactive conformation. The two domains are connected by a 12-residue segment termed the stalk, which adopts a β-strand conformation, instead of forming an α-helix as observed in the previously solved structure of the GCGR transmembrane domain. The first extracellular loop exhibits a β-hairpin conformation and interacts with the stalk to form a compact β-sheet structure. Hydrogen-deuterium exchange, disulfide crosslinking and molecular dynamics studies suggest that the stalk and the first extracellular loop have critical roles in modulating peptide ligand binding and receptor activation. These insights into the full-length GCGR structure deepen our understanding of the signalling mechanisms of class B G-protein-coupled receptors.

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Organizational Affiliation: 

CAS Key Laboratory of Receptor Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 555 Zuchongzhi Road, Pudong, Shanghai 201203, China.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Glucagon receptor,Endolysin,Glucagon receptor	A, B	574	Homo sapiens, Enterobacteria phage T4 This entity is chimeric	Mutation(s): 2  Gene Names: GCGR, E EC: 3.2.1.17
Membrane protein mpstruct	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  G Protein-Coupled Receptors (GPCRs)	Protein:  Class B GPCR glucagon receptor
Find proteins for P47871 (Homo sapiens) Go to Gene View: GCGR Go to UniProtKB:  P47871
Find proteins for P00720 (Enterobacteria phage T4) Go to UniProtKB:  P00720

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Antibody mAb1 Heavy chain	C, H	231	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
Antibody mAb1 Light chain	D, L	214	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
97V	A, B	4-{[(4-cyclohexylphenyl){[3-(methylsulfonyl)phenyl]carbamoyl}amino]methyl}-N-(1H-tetrazol-5-yl)benzamide C29 H31 N7 O4 S PPTKULJUDJWTSA-UHFFFAOYSA-N
NAG	A, B	N-ACETYL-D-GLUCOSAMINE C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.19 Å
• R-Value Free: 0.231 
• R-Value Work: 0.205 
• Space Group: P 1 2₁ 1

Unit Cell:

Length (Å)	Angle (°)
a = 71.460	α = 90.00
b = 248.790	β = 90.16
c = 93.330	γ = 90.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2017-04-06 
• Released Date: 2017-05-24 
• Deposition Author(s): Zhang, H., Qiao, A., Yang, D., Yang, L., Dai, A., de Graaf, C., Reedtz-Runge, S., Dharmarajan, V., Zhang, H., Han, G.W., Grant, T., Sierra, R., Weierstall, U., Nelson, G., Liu, W., Wu, Y., Ma, L., Cai, X., Lin, G., Wu, X., Geng, Z., Dong, Y., Song, G., Griffin, P., Lau, J., Cherezov, V., Yang, H., Hanson, M., Stevens, R., Jiang, H., Wang, M., Zhao, Q., Wu, B.

Revision History 

• Version 1.0: 2017-05-24
  Type: Initial release
• Version 1.1: 2017-06-07
  Type: Database references
• Version 1.2: 2017-06-14
  Type: Database references