4IAR

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.223 

wwPDB Validation 3D Report Full Report


This is version 1.5 of the entry. See complete history

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

  • DOI: 10.1126/science.1232807
  • Primary Citation of Related Structures:  4IAQ

  • 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 ergo ...

    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.


    Organizational Affiliation

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




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Chimera protein of human 5-hydroxytryptamine receptor 1B and E. Coli soluble cytochrome b562
A
401Escherichia coliHomo sapiens
This entity is chimeric
Gene Names: cybC, HTR1B (HTR1DB)
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
G Protein-Coupled Receptors (GPCRs)
Protein: 
5-HT1B serotonin receptor with bound ergotamine
Find proteins for P0ABE7 (Escherichia coli)
Go to UniProtKB:  P0ABE7
Find proteins for P28222 (Homo sapiens)
Go to Gene View: HTR1B
Go to UniProtKB:  P28222
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
OLB
Query on OLB

Download SDF File 
Download CCD File 
A
(2S)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate
C21 H40 O4
RZRNAYUHWVFMIP-QJRAZLAKSA-N
 Ligand Interaction
ERM
Query on ERM

Download SDF File 
Download CCD File 
A
Ergotamine
C33 H35 N5 O5
XCGSFFUVFURLIX-VFGNJEKYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.223 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 195.290α = 90.00
b = 45.500β = 95.45
c = 74.280γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
REFMACrefinement
Blu-Icedata collection
BUSTERrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2013-03-13
    Type: Initial release
  • Version 1.1: 2013-04-10
    Type: Database references
  • Version 1.2: 2013-05-15
    Type: Database references
  • Version 1.3: 2013-12-18
    Type: Derived calculations
  • Version 1.4: 2017-06-07
    Type: Database references, Structure summary
  • Version 1.5: 2017-11-15
    Type: Refinement description