12KZ | pdb_000012kz

Crystal structure of human KRAS G12C covalently bound to thiazol-2-yl piperidine compound 3

• PDB DOI: https://doi.org/10.2210/pdb12KZ/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2026-04-10 Released: 2026-08-12 
• Deposition Author(s): Mohr, C.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 
  0.190 (Depositor), 0.193 (DCC) 
• R-Value Work: 
  0.180 (Depositor), 0.185 (DCC) 
• R-Value Observed: 
  0.180 (Depositor) 

Starting Model: experimental

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 

• DOI: https://doi.org/10.1021/acs.jmedchem.6c01357

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 22.16 kDa 
• Atom Count: 1,593 
• Modeled Residue Count: 169 
• Deposited Residue Count: 184 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform 2B of GTPase KRas	A	184	Homo sapiens	Mutation(s): 2  Gene Names: KRAS, KRAS2, RASK2 EC: 3.6.5.2
UniProt & NIH Common Fund Data Resources
Find proteins for P01116 (Homo sapiens) Go to UniProtKB:  P01116
PHAROS:  P01116 GTEx:  ENSG00000133703

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1DI3( Subject of Investigation/LOI)	D [auth A]	1-[4-(1-{6-[4-(1,3-thiazol-2-yl)piperidin-1-yl]-2-(trifluoromethyl)pyrimidin-4-yl}azetidin-3-yl)piperazin-1-yl]propan-1-one C23 H30 F3 N7 O S HKZGSCKVAXLGEZ-UHFFFAOYSA-N
GDP	C [auth A]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
EDO	E [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
MG	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free:  0.190 (Depositor), 0.193 (DCC) 
• R-Value Work:  0.180 (Depositor), 0.185 (DCC) 
• R-Value Observed: 0.180 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.777	α = 90
b = 93.777	β = 90
c = 120.471	γ = 120

Software Package:

Software Name	Purpose
XDS	data reduction
XDS	data scaling
MOLREP	phasing
REFMAC	refinement
Coot	model building
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

& Funding Information

Deposition Data

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

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2026-08-12
  Type: Initial release