7WIY

Cryo-EM structure of human TPH2 tetramer


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.09 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Cryo-EM Structure and Activator Screening of Human Tryptophan Hydroxylase 2.

Zhu, K.Liu, C.Gao, Y.Lu, J.Wang, D.Zhang, H.

(2022) Front Pharmacol 13: 907437-907437

  • DOI: https://doi.org/10.3389/fphar.2022.907437
  • Primary Citation of Related Structures:  
    7WIY

  • PubMed Abstract: 

    Human tryptophan hydroxylase 2 (TPH2) is the rate-limiting enzyme in the synthesis of serotonin. Its dysfunction has been implicated in various psychiatric disorders such as depression, autism, and bipolar disorder. TPH2 is typically decreased in stability and catalytic activity in patients; thus, screening of molecules capable of binding and stabilizing the structure of TPH2 in activated conformation is desired for drug development in mental disorder treatment. Here, we solved the 3.0 Å cryo-EM structure of the TPH2 tetramer. Then, based on the structure, we conducted allosteric site prediction and small-molecule activator screening to the obtained cavity. ZINC000068568685 was successfully selected as the best candidate with highest binding affinity. To better understand the driving forces and binding stability of the complex, we performed molecular dynamics simulation, which indicates that ZINC000068568685 has great potential to stabilize the folding of the TPH2 tetramer to facilitate its activity. The research might shed light on the development of novel drugs targeting TPH2 for the treatment of psychological disorders.


  • Organizational Affiliation

    Department of Biomedical Engineering, Southern University of Science and Technology, Shenzhen, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tryptophan 5-hydroxylase 2A [auth B],
B [auth C],
C [auth D],
D [auth A]
490Homo sapiensMutation(s): 0 
Gene Names: TPH2NTPH
EC: 1.14.16.4
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IWU9 (Homo sapiens)
Explore Q8IWU9 
Go to UniProtKB:  Q8IWU9
PHAROS:  Q8IWU9
GTEx:  ENSG00000139287 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8IWU9
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
IMD (Subject of Investigation/LOI)
Query on IMD

Download Ideal Coordinates CCD File 
F [auth B],
H [auth C],
J [auth D],
L [auth A]
IMIDAZOLE
C3 H5 N2
RAXXELZNTBOGNW-UHFFFAOYSA-O
FE (Subject of Investigation/LOI)
Query on FE

Download Ideal Coordinates CCD File 
E [auth B],
G [auth C],
I [auth D],
K [auth A]
FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.09 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31900046
National Natural Science Foundation of China (NSFC)China81972085
National Natural Science Foundation of China (NSFC)China82172465

Revision History  (Full details and data files)

  • Version 1.0: 2022-10-05
    Type: Initial release
  • Version 1.1: 2024-06-26
    Changes: Data collection