7CDF image
Deposition Date 2020-06-19
Release Date 2021-06-23
Last Version Date 2023-11-29
Entry Detail
PDB ID:
7CDF
Title:
Crystal structure of LSD1-CoREST in complex with PRSFLVRRK peptide
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.68 Å
R-Value Free:
0.24
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
I 2 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Lysine-specific histone demethylase 1A
Gene (Uniprot):KDM1A
Chain IDs:A
Chain Length:669
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:REST corepressor 1
Gene (Uniprot):RCOR1
Chain IDs:B
Chain Length:140
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:PRO-ARG-SER-PHE-LEU-VAL-ARG-ARG-LYS
Chain IDs:C
Chain Length:9
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Structure-Based Identification of Potent Lysine-Specific Demethylase 1 Inhibitor Peptides and Temporary Cyclization to Enhance Proteolytic Stability and Cell Growth-Inhibitory Activity.
J.Med.Chem. 64 3707 3719 (2021)
PMID: 33754721 DOI: 10.1021/acs.jmedchem.0c01371

Abstact

Peptides are attractive drug candidates, but their utility is greatly limited by their inherent susceptibility to proteolytic degradation and their inability to pass through the cell membrane. Here, we employ a strategy of temporary cyclization to develop a cell-active lysine-specific demethylase 1 (LSD1/KDM1A) inhibitor peptide. We first identified a highly potent LSD1-inhibitory linear peptide, with the assistance of X-ray crystal structure data of inhibitor peptide-bound LSD1·CoREST. The peptide was converted to a redox-activatable cyclic peptide incorporating cell-penetrating peptide (CPP), expecting selective activation under intracellular reducing conditions. The cyclic peptide moiety exhibited enhanced stability to protease and was converted to the linear, unmodified LSD1 inhibitor peptide under reducing conditions. The cyclic peptide with CPP inhibited the proliferation of human acute myeloid leukemia cells (HL-60) in the low micromolar concentration range.

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Primary Citation of related structures