ISDA

Entry Detail

PDB ID:

7NUS

Keywords:

Title:

X-RAY STRUCTURE OF HDM2/CMR19 AT 1.45A: Discovery, X-ray structure and CPP-conjugation enabled uptake of p53/MDM2 macrocyclic peptide inhibitors

Biological Source:

Source Organism:

Homo sapiens, synthetic construct

Host Organism:

Escherichia coli BL21(DE3)

PDB Version:

Deposition Date:

2021-03-13

Release Date:

2021-09-22

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.45 Å

R-Value Free:

0.19

R-Value Work:

0.17

R-Value Observed:

0.17

Space Group:

C 1 2 1

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:E3 ubiquitin-protein ligase Mdm2
Chain IDs:A, B, C
Chain Length:96
Number of Molecules:3
Biological Source:Homo sapiens

UniProt ID:Q00987 Pfam ID:PF02201 EC:2.3.2.27

Polymer Type:polypeptide(L)
Description:p53/MDM2 macrocyclic peptide inhibitor
Chain IDs:D, E, F
Chain Length:15
Number of Molecules:3
Biological Source:synthetic construct

Ligand Molecules

SO4

Primary Citation

Discovery, X-ray structure and CPP-conjugation enabled uptake of p53/MDM2 macrocyclic peptide inhibitors.

Schneider, A.F.L, Kallen, J, Ottl, J, Reid, P.C, Ripoche, S, Ruetz, S, Stachyra, T.M, Hintermann, S, Dumelin, C.E, Hackenberger, C.P.R, Marzinzik, A.L.Show

Rsc Chem Biol 2 1661 1668 (2021)

PMID: 34977581 DOI: 10.1039/d1cb00056j

Abstact

Mouse double minute 2 homolog (MDM2, Hdm2) is an important negative regulator of the tumor suppressor p53. Using a mRNA based display technique to screen a library of >1012 in vitro-translated cyclic peptides, we have identified a macrocyclic ligand that shows picomolar potency on MDM2. X-Ray crystallography reveals a novel binding mode utilizing a unique pharmacophore to occupy the Phe/Trp/Leu pockets on MDM2. Conjugation of a cyclic cell-penetrating peptide (cCPP) to the initially non cell-permeable ligand enables cellular uptake and a pharmacodynamic response in SJSA-1 cells. The demonstrated enhanced intracellular availability of cyclic peptides that are identified by a display technology exemplifies a process for the application of intracellular tools for drug discovery projects.

Legend

Protein

Chemical

Disease

Primary Citation of related structures