12LA | pdb_000012la

Crystal structure of human KRAS G12C covalently bound to 4-methyl-thiazol-5-yl piperidine compound 4


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.10 Å
  • R-Value Free: 
    0.191 (Depositor), 0.200 (DCC) 
  • R-Value Work: 
    0.180 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 
    0.180 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history

Literature

Property-Biased Covalent DNA-Encoded Library Screening Enabled the Discovery of AM-8719, A Structurally Novel, CNS-Penetrant KRAS G12C Inhibitor.

Rast, S.Morgan-Fisher, M.Blomquist, S.D.Cadahia, J.P.Cowland, S.Franch, T.Glibstrup, E.Gouliaev, A.Haahr Hansen, M.Kontijevskis, A.Kronborg, T.Moretti, L.Nadali, A.Nielsen, S.Leth-Petersen, S.Rabe, M.Alafate, A.Allen, J.R.Banerjee, A.Booker, S.K.Butler, J.R.Hot, I.Huang, D.Kaller, M.R.Kapoor, R.Liu, Q.Lopez, P.Ma, V.Manoni, F.Medina, J.M.Pickrell, A.J.Wang, H.L.Xie, J.Zhang, W.Mohr, C.Chen, K.Saiki, A.Y.Wang, P.Leavitt, M.Rex, K.Zhong, G.Zou, L.Lade, J.Dahal, U.P.Farhan, N.Agarwal, P.Zandkarimi, B.Zhu, K.Husemoen, G.Tamayo, N.A.Lanman, B.A.

(2026) J Med Chem 69: 19050-19064

  • DOI: https://doi.org/10.1021/acs.jmedchem.6c01357
  • Primary Citation Related Structures: 
    12KZ, 12LA, 12LB, 12LC

  • PubMed Abstract: 

    Activating mutations in the Kirsten rat sarcoma (KRAS) gene are prevalent oncogenic drivers in nonsmall cell lung cancer (NSCLC). Patients harboring KRAS-mutant lung cancers frequently develop central nervous system (CNS) metastases. Although approved KRAS G12C inhibitors (i.e., sotorasib and adagrasib) show promising clinical CNS activity, these agents demonstrate low preclinical brain-to-plasma ratios, raising the question of whether compounds with elevated preclinical Kp,uu,brain values might show enhanced clinical performance. Here, we report the first successful application of DNA-encoded library (DEL) screening technology to the identification of CNS-penetrant covalent inhibitors of KRAS G12C. In this effort, a property-biased covalent DEL-screening approach enabled the discovery of a structurally novel series of hydrogen bond donor-free KRAS G12C inhibitors with improved CNS exposure. Leveraging structure-based design, we refined this hit series to deliver lead compound AM-8719, a CNS-penetrant, orally efficacious KRAS G12C inhibitor exhibiting 200-fold improved potency with respect to initial screening hits.


  • Organizational Affiliation
    • Amgen Research, Rønnegade 8, Copenhagen2100, Denmark.

Macromolecule Content 

  • Total Structure Weight: 22.18 kDa 
  • Atom Count: 1,636 
  • Modeled Residue Count: 169 
  • Deposited Residue Count: 184 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Isoform 2B of GTPase KRas184Homo sapiensMutation(s): 2 
Gene Names: KRASKRAS2RASK2
EC: 3.6.5.2
UniProt & NIH Common Fund Data Resources
Find proteins for P01116 (Homo sapiens)
Explore P01116 
Go to UniProtKB:  P01116
PHAROS:  P01116
GTEx:  ENSG00000133703 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01116
Sequence Annotations
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Reference Sequence

Small Molecules

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.10 Å
  • R-Value Free:  0.191 (Depositor), 0.200 (DCC) 
  • R-Value Work:  0.180 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 0.180 (Depositor) 
Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 93.699α = 90
b = 93.699β = 90
c = 120.826γ = 120
Software Package:
Software NamePurpose
XDSdata reduction
XDSdata scaling
MOLREPphasing
REFMACrefinement
Cootmodel building
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data

  • Released Date: 2026-08-12 
  • Deposition Author(s): Mohr, C.

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2026-08-12
    Type: Initial release
  • Version 1.1: 2026-08-26
    Changes: Database references