6N0M

CRYSTAL STRUCTURE OF SESTRIN2 IN COMPLEX WITH NV-0005138


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.187 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Discovery of NV-5138, the first selective Brain mTORC1 activator.

Sengupta, S.Giaime, E.Narayan, S.Hahm, S.Howell, J.O'Neill, D.Vlasuk, G.P.Saiah, E.

(2019) Sci Rep 9: 4107-4107

  • DOI: 10.1038/s41598-019-40693-5
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The mechanistic target of rapamycin complex 1 (mTORC1) has been linked to several important chronic medical conditions many of which are associated with advancing age. A variety of inputs including the amino acid leucine are required for full mTORC1 ...

    The mechanistic target of rapamycin complex 1 (mTORC1) has been linked to several important chronic medical conditions many of which are associated with advancing age. A variety of inputs including the amino acid leucine are required for full mTORC1 activation. The cytoplasmic proteins Sestrin1 and Sestrin2 specifically bind to the multiprotein complex GATOR2 and communicate leucine sufficiency to the mTORC1 pathway activation complex. Herein, we report NV-5138, a novel orally bioavailable compound that binds to Sestrin2 and activates mTORC1 both in vitro and in vivo. NV-5138 like leucine transiently activates mTORC1 in several peripheral tissues, but in contrast to leucine uniquely activates this complex in the brain due lack of metabolism and utilization in protein synthesis. As such, NV-5138 will permit the exploration in areas of unmet medical need including neuropsychiatric conditions and cognition which have been linked to the activation status of mTORC1.


    Organizational Affiliation

    Navitor Pharmaceuticals, Inc., 1030 Massachusetts Ave. #410, Cambridge, MA, 02138, USA.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Sestrin-2
A, B, C, D, E
415Homo sapiensMutation(s): 0 
Gene Names: SESN2Hi95SEST2
EC: 1.11.1.15 (PDB Primary Data), 1.11.1 (UniProt)
Find proteins for P58004 (Homo sapiens)
Go to UniProtKB:  P58004
NIH Common Fund Data Resources
PHAROS  P58004
Protein Feature View
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
K94
Query on K94

Download CCD File 
A, B, C, D, E
4-(difluoromethyl)-L-leucine
C7 H13 F2 N O2
HRFIMCJTDKEPPV-BYPYZUCNSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.187 
  • Space Group: I 2 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 290.41α = 90
b = 290.41β = 90
c = 290.41γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
REFMACrefinement
PDB_EXTRACTdata extraction
Aimlessdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2018-11-07 
  • Released Date: 2019-04-10 
  • Deposition Author(s): O'Neill, D.

Revision History 

  • Version 1.0: 2019-04-10
    Type: Initial release
  • Version 1.1: 2019-04-17
    Changes: Data collection, Database references