8YNS

Cryo-EM structure of SNAP-94847-bound MCHR1, S1 state

• PDB DOI: https://doi.org/10.2210/pdb8YNS/pdb
• EM Map EMD-39429: EMDB EMDataResource

• Classification: SIGNALING PROTEIN
• Organism(s): synthetic construct, Homo sapiens, Pan paniscus, Escherichia coli
• Expression System: Escherichia coli, Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2024-03-11 Released: 2024-12-18 
• Deposition Author(s): Ye, X., Liu, G., Li, X., Liu, H., Gong, W.
• Funding Organization(s): Ministry of Science and Technology (MoST, China), National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.33 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural insights into physiological activation and antagonism of melanin-concentrating hormone receptor MCHR1.

Ye, X., Liu, G., Li, X., He, B., Tao, Y., Guan, J., Mu, Y., Liu, H., Gong, W.

(2024) Cell Discov 10: 124-124

• PubMed: 39616153 
• DOI: https://doi.org/10.1038/s41421-024-00754-0
• Primary Citation of Related Structures:  
  8WWK, 8WWL, 8WWM, 8WWN, 8YNS, 8YNT

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Organizational Affiliation: 

Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei, Anhui, China.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A3B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 145.38 kDa 
• Atom Count: 7,296 
• Modelled Residue Count: 958 
• Deposited Residue Count: 1,328 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody 1B3 Fab heavy chain	A [auth H]	238	synthetic construct	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody 1B3 Fab light chain	B [auth L]	220	synthetic construct	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Glue molecule 4-9	C [auth N]	285	synthetic construct	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusion protein 1,Melanin-concentrating hormone receptor 1,Soluble cytochrome b562,Fusion protein 2	D [auth R]	585	Homo sapiens, Pan paniscus, Escherichia coli	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for A0A2R9AFP0 (Pan paniscus) Explore A0A2R9AFP0  Go to UniProtKB:  A0A2R9AFP0
Find proteins for P0ABE7 (Escherichia coli) Explore P0ABE7  Go to UniProtKB:  P0ABE7
Find proteins for Q99705 (Homo sapiens) Explore Q99705  Go to UniProtKB:  Q99705
PHAROS:  Q99705 GTEx:  ENSG00000128285
UniProt Groups	P0ABE7A0A2R9AFP0Q99705

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1D6T (Subject of Investigation/LOI)	E [auth R]	~{N}-[3-[1-[[4-[3,4-bis(fluoranyl)phenoxy]phenyl]methyl]piperidin-4-yl]-4-methyl-phenyl]-2-methyl-propanamide C29 H32 F2 N2 O2 VMLZFUVIKCGATC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.33 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-12-18 
Deposition Author(s): Ye, X., Liu, G., Li, X., Liu, H., Gong, W.

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Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, China)	China	2019YFA0904100
National Natural Science Foundation of China (NSFC)	China	T2221005

Revision History  

• Version 1.0: 2024-12-18
  Type: Initial release