Crystal structure of hdmx bound to the P53-peptidomimetic ac-phe-met- aib-pmp-6-cl-TRP-glu-AC3C-leu-NH2 at 1.33A

Structure

x-ray diffraction · 2 distinct chains · 48% helix, 19% strand (DSSP).

Ligands and binding sites

• ACE · Acetyl group · ligand · 2 copies · chains A, L, M
• NH2 · Amino group · ion · 2 copies · chains L, M
• MPD · (4S)-2-methyl-2,4-pentanediol · additive · chains A, L, M

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Interfaces

2 interfaces between chains.

• A–L · 484 Ų buried · 2 hydrogen bonds · protein-protein
• A–M · 266 Ų buried · 1 hydrogen bond · protein-protein

Modifications

Observed in the structure: 8 modified, 2 covalent (nonstandard, covalent ligand).

Compared structures

• 3FEA · Crystal Structure of HdmX bound to the p53-peptidomimetic… · the same entry in another collection · chain A against A, TM-score 1.00
• O15151 · AlphaFold monomer V2.0 prediction for protein MDM4 (O15151) · a predicted model of the same protein · chain A against A, TM-score 0.98

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt O15151
• Elsewhere: RCSB PDB 3FEA · PDBe 3FEA · UniProt O15151