5V54

Crystal structure of 5-HT1B receptor in complex with methiothepin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.90 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.272 
  • R-Value Observed: 0.273 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

A common antagonistic mechanism for class A GPCRs revealed by the structure of the human 5-HT1B serotonin receptor bound to an antagonist

Yin, W.C.Zhou, X.E.Yang, D.De Waal, P.Wang, M.T.Dai, A.Cai, X.Huang, C.Y.Liu, P.Yin, Y.Liu, B.Caffrey, M.Melcher, K.Xu, Y.Wang, M.W.Xu, H.E.Jiang, Y.

(2018) Cell Discov 


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
5-hydroxytryptamine receptor 1B,OB-1 fused 5-HT1b receptor,5-hydroxytryptamine receptor 1BA, B395Homo sapiensSpodoptera frugiperdaMutation(s): 1 
Gene Names: HTR1BHTR1DB
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P28222 (Homo sapiens)
Explore P28222 
Go to UniProtKB:  P28222
PHAROS:  P28222
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
89F
Query on 89F

Download Ideal Coordinates CCD File 
C [auth A], D [auth B]1-methyl-4-[(5~{S})-3-methylsulfanyl-5,6-dihydrobenzo[b][1]benzothiepin-5-yl]piperazine
C20 H24 N2 S2
RLJFTICUTYVZDG-SFHVURJKSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.90 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.272 
  • R-Value Observed: 0.273 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 235.2α = 90
b = 48.83β = 124.07
c = 139.22γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science FoundationChina31300607
Outstanding Young Scientist FoundationChina--
Jay and Betty Van Andel FoundationUnited States--
Ministry of Science and Technology of ChinaChina2012ZX09301001
Ministry of Science and Technology of ChinaChina2012CB910403
Ministry of Science and Technology of ChinaChina2013CB9106010
Ministry of Science and Technology of ChinaChinaXDB08020303
Ministry of Science and Technology of ChinaChina2013ZX09507001
National Institutes of HealthUnited StatesDK071662
National Institutes of HealthUnited StatesGM102545
National Institutes of HealthUnited StatesGM104212
Shanghai Science and Technology Development FundChina15DZ2291600
Shanghai Science and Technology Development FundChina14431901200
National Natural Science FoundationChina81373463
CAS-Novo Nordisk Research FundChina--
Youth Innovation Promotion Association of CASChina--

Revision History  (Full details and data files)

  • Version 1.0: 2018-02-07
    Type: Initial release