7YUZ image
Deposition Date 2022-08-18
Release Date 2023-07-26
Last Version Date 2023-11-22
Entry Detail
PDB ID:
7YUZ
Title:
Human K-Ras G12D (GDP-bound) in complex with cyclic peptide inhibitor AP8784
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.88 Å
R-Value Free:
0.29
R-Value Work:
0.25
R-Value Observed:
0.26
Space Group:
P 31 2 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Isoform 2B of GTPase KRas
Gene (Uniprot):KRAS
Mutagens:G12D
Chain IDs:A
Chain Length:179
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:AP8784
Chain IDs:B (auth: I)
Chain Length:11
Number of Molecules:1
Biological Source:synthetic construct
Primary Citation

Abstact

Establishing a technological platform for creating clinical compounds inhibiting intracellular protein-protein interactions (PPIs) can open the door to many valuable drugs. Although small molecules and antibodies are mainstream modalities, they are not suitable for a target protein that lacks a deep cavity for a small molecule to bind or a protein found in intracellular space out of an antibody's reach. One possible approach to access these targets is to utilize so-called middle-size cyclic peptides (defined here as those with a molecular weight of 1000-2000 g/mol). In this study, we validated a new methodology to create oral drugs beyond the rule of 5 for intracellular tough targets by elucidating structural features and physicochemical properties for drug-like cyclic peptides and developing library technologies to afford highly N-alkylated cyclic peptide hits. We discovered a KRAS inhibitory clinical compound (LUNA18) as the first example of our platform technology.

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Disease

Primary Citation of related structures