8T6D

Identification of GDC-1971 (RLY-1971), a SHP2 inhibitor designed for the treatment of solid tumors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.239 
  • R-Value Observed: 0.242 

Starting Model: experimental
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Literature

Identification of GDC-1971 (RLY-1971), a SHP2 Inhibitor Designed for the Treatment of Solid Tumors.

Taylor, A.M.Williams, B.R.Giordanetto, F.Kelley, E.H.Lescarbeau, A.Shortsleeves, K.Tang, Y.Walters, W.P.Arrazate, A.Bowman, C.Brophy, E.Chan, E.W.Deshmukh, G.Greisman, J.B.Hunsaker, T.L.Kipp, D.R.Saenz Lopez-Larrocha, P.Maddalo, D.Martin, I.J.Maragakis, P.Merchant, M.Murcko, M.Nisonoff, H.Nguyen, V.Nguyen, V.Orozco, O.Owen, C.Pierce, L.Schmidt, M.Shaw, D.E.Smith, S.Therrien, E.Tran, J.C.Watters, J.Waters, N.J.Wilbur, J.Willmore, L.

(2023) J Med Chem 66: 13384-13399

  • DOI: https://doi.org/10.1021/acs.jmedchem.3c00483
  • Primary Citation of Related Structures:  
    8T6D, 8T6G, 8T7Q, 8T8Q

  • PubMed Abstract: 

    Protein tyrosine phosphatase SHP2 mediates RAS-driven MAPK signaling and has emerged in recent years as a target of interest in oncology, both for treating with a single agent and in combination with a KRAS inhibitor. We were drawn to the pharmacological potential of SHP2 inhibition, especially following the initial observation that drug-like compounds could bind an allosteric site and enforce a closed, inactive state of the enzyme. Here, we describe the identification and characterization of GDC-1971 (formerly RLY-1971), a SHP2 inhibitor currently in clinical trials in combination with KRAS G12C inhibitor divarasib (GDC-6036) for the treatment of solid tumors driven by a KRAS G12C mutation.


  • Organizational Affiliation

    Relay Therapeutics, Inc., 399 Binney St., Cambridge,, Massachusetts 02139, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tyrosine-protein phosphatase non-receptor type 11
A, B
526Homo sapiensMutation(s): 0 
Gene Names: PTPN11PTP2CSHPTP2
EC: 3.1.3.48
UniProt & NIH Common Fund Data Resources
Find proteins for Q06124 (Homo sapiens)
Explore Q06124 
Go to UniProtKB:  Q06124
PHAROS:  Q06124
GTEx:  ENSG00000179295 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ06124
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
YR2 (Subject of Investigation/LOI)
Query on YR2

Download Ideal Coordinates CCD File 
H [auth A],
M [auth B]
(3R)-1'-[3-(3,4-dihydro-1,5-naphthyridin-1(2H)-yl)-1H-pyrazolo[3,4-b]pyrazin-6-yl]-3H-spiro[[1]benzofuran-2,4'-piperidin]-3-amine
C25 H26 N8 O
RGCGBFIARQENML-JOCHJYFZSA-N
SO4
Query on SO4

Download Ideal Coordinates CCD File 
C [auth A]
D [auth A]
E [auth A]
F [auth A]
G [auth A]
C [auth A],
D [auth A],
E [auth A],
F [auth A],
G [auth A],
I [auth B],
J [auth B],
K [auth B],
L [auth B]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.239 
  • R-Value Observed: 0.242 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 47.02α = 90
b = 214.218β = 97.17
c = 56.044γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
SCALEPACKdata scaling
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other private--

Revision History  (Full details and data files)

  • Version 1.0: 2023-10-11
    Type: Initial release
  • Version 1.1: 2023-10-25
    Changes: Database references