5ZGG

NMR structure of p75NTR transmembrane domain in complex with NSC49652


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

A Small Molecule Targeting the Transmembrane Domain of Death Receptor p75NTRInduces Melanoma Cell Death and Reduces Tumor Growth.

Goh, E.T.H.Lin, Z.Ahn, B.Y.Lopes-Rodrigues, V.Dang, N.H.Salim, S.Berger, B.Dymock, B.Senger, D.L.Ibanez, C.F.

(2018) Cell Chem Biol 25: 1485-1494.e5

  • DOI: 10.1016/j.chembiol.2018.09.007

  • PubMed Abstract: 
  • Small molecules offer powerful ways to alter protein function. However, most proteins in the human proteome lack small-molecule probes, including the large class of non-catalytic transmembrane receptors, such as death receptors. We hypothesized that ...

    Small molecules offer powerful ways to alter protein function. However, most proteins in the human proteome lack small-molecule probes, including the large class of non-catalytic transmembrane receptors, such as death receptors. We hypothesized that small molecules targeting the interfaces between transmembrane domains (TMDs) in receptor complexes may induce conformational changes that alter receptor function. Applying this concept in a screening assay, we identified a compound targeting the TMD of death receptor p75 NTR that induced profound conformational changes and receptor activity. The compound triggered apoptotic cell death dependent on p75 NTR and JNK activity in neurons and melanoma cells, and inhibited tumor growth in a melanoma mouse model. Due to their small size and crucial role in receptor activation, TMDs represent attractive targets for small-molecule manipulation of receptor function.


    Organizational Affiliation

    Department of Pharmacy, National University of Singapore, Singapore 117597, Singapore.,Department of Physiology, National University of Singapore, Singapore 117597, Singapore; Life Sciences Institute, National University of Singapore, Singapore 117456, Singapore; Department of Cell and Molecular Biology, Karolinska Institute, Stockholm 17165, Sweden. Electronic address: phscfi@nus.edu.sg.,Department of Physiology, National University of Singapore, Singapore 117597, Singapore; Life Sciences Institute, National University of Singapore, Singapore 117456, Singapore; Department of Cell and Molecular Biology, Karolinska Institute, Stockholm 17165, Sweden.,Department of Chemical Engineering, University of Virginia, Charlottesville, VA 22904, USA.,Department of Physiology, National University of Singapore, Singapore 117597, Singapore; Life Sciences Institute, National University of Singapore, Singapore 117456, Singapore.,Arnie Charbonneau Cancer Institute, Department of Oncology, Cumming School of Medicine, University of Calgary, Calgary T2N 1N4, Canada.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Tumor necrosis factor receptor superfamily member 16
A, B
34Homo sapiensMutation(s): 0 
Gene Names: NGFR (TNFRSF16)
Find proteins for P08138 (Homo sapiens)
Go to Gene View: NGFR
Go to UniProtKB:  P08138
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
9F6
Query on 9F6

Download SDF File 
Download CCD File 
B
(2E)-1-(2-hydroxyphenyl)-3-(pyridin-3-yl)prop-2-en-1-one
C14 H11 N O2
CRWNZUBUBIULHB-BQYQJAHWSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2018-03-08 
  • Released Date: 2019-03-13 
  • Deposition Author(s): Lin, Z., Ibanez, C.

Funding OrganizationLocationGrant Number
TianjinChina17JCYBJC24200

Revision History 

  • Version 1.0: 2019-03-13
    Type: Initial release
  • Version 1.1: 2019-09-25
    Type: Data collection, Database references