6WH4

Crystal structure of HTR2A with inverse agonist

• PDB DOI: https://doi.org/10.2210/pdb6WH4/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens, Escherichia coli
• Expression System: Spodoptera frugiperda
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2020-04-07 Released: 2020-09-23 
• Deposition Author(s): Kim, K.L., Che, T., Krumm, B.E., Roth, B.L.
• Funding Organization(s): National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA), National Institutes of Health/National Institute of Mental Health (NIH/NIMH)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.304 
• R-Value Work: 0.258 
• R-Value Observed: 0.260 

Literature

Structure of a Hallucinogen-Activated Gq-Coupled 5-HT 2A Serotonin Receptor

Kim, K.L., Che, T., Panova, O., DiBerto, J.F., Lyu, J., Krumm, B.E., Wacker, D., Robertson, M.J., Seven, A.B., Nichols, D.E., Shoichet, B.K., Skiniotis, G., Roth, B.L.

(2020) Cell 182: 1574-1588

• DOI: https://doi.org/10.1016/j.cell.2020.08.024

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 155.44 kDa 
• Atom Count: 8,108 
• Modelled Residue Count: 1,111 
• Deposited Residue Count: 1,344 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
5-hydroxytryptamine receptor 2A,Soluble cytochrome b562 fusion	A, B, C	448	Homo sapiens, Escherichia coli	Mutation(s): 0  Gene Names: HTR2A, HTR2, cybC Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P28223 (Homo sapiens) Explore P28223  Go to UniProtKB:  P28223
PHAROS:  P28223 GTEx:  ENSG00000102468
Find proteins for P0ABE7 (Escherichia coli) Explore P0ABE7  Go to UniProtKB:  P0ABE7
UniProt Groups	P28223P0ABE7

Small Molecules

Ligands 6 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CLR	G [auth A], M [auth C]	CHOLESTEROL C27 H46 O HVYWMOMLDIMFJA-DPAQBDIFSA-N
89F (Subject of Investigation/LOI)	D [auth A], I [auth B], L [auth C]	1-methyl-4-[(5~{S})-3-methylsulfanyl-5,6-dihydrobenzo[b][1]benzothiepin-5-yl]piperazine C20 H24 N2 S2 RLJFTICUTYVZDG-SFHVURJKSA-N
OLA	E [auth A], F [auth A], K [auth B], Q [auth C]	OLEIC ACID C18 H34 O2 ZQPPMHVWECSIRJ-KTKRTIGZSA-N
1PE	R [auth C]	PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N
NDS	P [auth C]	ETHYL DIMETHYL AMMONIO PROPANE SULFONATE C7 H17 N O3 S NNCRHRDBFDCWPA-UHFFFAOYSA-N
PEG	H [auth A], J [auth B], N [auth C], O [auth C]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.304 
• R-Value Work: 0.258 
• R-Value Observed: 0.260 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.38	α = 90
b = 177.31	β = 90
c = 280.59	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Coot	model building
XDS	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-09-23 
Deposition Author(s): Kim, K.L., Che, T., Krumm, B.E., Roth, B.L.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)	United States	R37 DA045657
National Institutes of Health/National Institute of Mental Health (NIH/NIMH)	United States	RO1 MH112205

Revision History  

• Version 1.0: 2020-09-23
  Type: Initial release
  
• Version 1.1: 2023-10-18
  Changes: Data collection, Database references, Refinement description