Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 46.10 kDa 
• Atom Count: 2800 
• Residue Count: 367 
• Unique protein chains: 1

4IAQ

Crystal structure of the chimeric protein of 5-HT1B-BRIL in complex with dihydroergotamine (PSI Community Target)

• DOI: 10.2210/pdb4IAQ/pdb

• Classification: Signaling Protein, Electron Transport
• Organism(s): Homo sapiens, Escherichia coli
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 


• Deposited: 2012-12-07 Released: 2013-03-13 
• Deposition Author(s): Wang, C., Jiang, Y., Ma, J., Wu, H., Wacker, D., Katritch, V., Han, G.W., Liu, W., Huang, X., Vardy, E., McCorvy, J.D., Gao, X., Zhou, E.X., Melcher, K., Zhang, C., Bai, F., Yang, H., Yang, L., Jiang, H., Roth, B.L., Cherezov, V., Stevens, R.C., Xu, H.E., GPCR Network (GPCR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.257 
• R-Value Work: 0.236 
• R-Value Observed: 0.237 

Literature

Structural basis for molecular recognition at serotonin receptors.

Wang, C., Jiang, Y., Ma, J., Wu, H., Wacker, D., Katritch, V., Han, G.W., Liu, W., Huang, X.P., Vardy, E., McCorvy, J.D., Gao, X., Zhou, X.E., Melcher, K., Zhang, C., Bai, F., Yang, H., Yang, L., Jiang, H., Roth, B.L., Cherezov, V., Stevens, R.C., Xu, H.E.

(2013) Science 340: 610-614

• PubMed: 23519210 
• DOI: 10.1126/science.1232807
• Primary Citation of Related Structures:  
  4IAQ, 4IAR


• PubMed Abstract: 
  

Serotonin or 5-hydroxytryptamine (5-HT) regulates a wide spectrum of human physiology through the 5-HT receptor family. We report the crystal structures of the human 5-HT1B G protein-coupled receptor bound to the agonist antimigraine medications ergotamine and dihydroergotamine. The structures reveal similar binding modes for these ligands, which occupy the orthosteric pocket and an extended binding pocket close to the extracellular loops. The orthosteric pocket is formed by residues conserved in the 5-HT receptor family, clarifying the family-wide agonist activity of 5-HT. Compared with the structure of the 5-HT2B receptor, the 5-HT1B receptor displays a 3 angstrom outward shift at the extracellular end of helix V, resulting in a more open extended pocket that explains subtype selectivity. Together with docking and mutagenesis studies, these structures provide a comprehensive structural basis for understanding receptor-ligand interactions and designing subtype-selective serotonergic drugs.

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Organizational Affiliation: 

Department of Integrative Structural and Computational Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chimera protein of human 5-hydroxytryptamine receptor 1B and E. Coli soluble cytochrome b562	A	403	Homo sapiens, Escherichia coli	Mutation(s): 4  Gene Names: 5HT1B_HUMAN, HTR1B, HTR1DB, cybC
Membrane protein Mpstruc	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  G Protein-Coupled Receptors: Class A	Protein:  5-HT1B serotonin receptor with bound ergotamine
Find proteins for P28222 (Homo sapiens) Explore P28222  Go to UniProtKB:  P28222
NIH Common Fund Data Resources
PHAROS:  P28222 GTEx:  ENSG00000135312
Find proteins for P0ABE7 (Escherichia coli) Explore P0ABE7  Go to UniProtKB:  P0ABE7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
2GM	A	Dihydroergotamine C33 H37 N5 O5 LUZRJRNZXALNLM-JGRZULCMSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.257 
• R-Value Work: 0.236 
• R-Value Observed: 0.237 
• Space Group: C 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.74	α = 90
b = 192.579	β = 90
c = 74.341	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHASER	phasing
REFMAC	refinement
BUSTER	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-12-07 
• Released Date: 2013-03-13 
Deposition Author(s): Wang, C., Jiang, Y., Ma, J., Wu, H., Wacker, D., Katritch, V., Han, G.W., Liu, W., Huang, X., Vardy, E., McCorvy, J.D., Gao, X., Zhou, E.X., Melcher, K., Zhang, C., Bai, F., Yang, H., Yang, L., Jiang, H., Roth, B.L., Cherezov, V., Stevens, R.C., Xu, H.E., GPCR Network (GPCR)

Revision History 

• Version 1.0: 2013-03-13
  Type: Initial release
  
• Version 1.1: 2013-04-10
  Changes: Database references
• Version 1.2: 2013-05-15
  Changes: Database references
• Version 1.3: 2017-07-26
  Changes: Refinement description, Source and taxonomy
• Version 1.4: 2017-11-15
  Changes: Refinement description