SMTL ID : 9c93.2 (1 other biounit)

Crystal structure of menin in complex with inhibitor compound 26

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.1: 5 residues within 4Å: Chain A: W.144, N.145, L.147, S.148, W.216 No protein-ligand interaction detected (PLIP)

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: R.350, N.351, V.352, R.353, G.419, S.420, A.421 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:V.352, A:R.353, A:A.421 Water bridges: A:N.351 Salt bridges: A:R.353

1 x 01: (1R,5R)-2-({5-fluoro-2-[(5-{7-[(1-methylcyclopropyl)methyl]-2,7-diazaspiro[3.5]nonan-2-yl}-1,2,4-triazin-6-yl)oxy]phenyl}methyl)-2-azabicyclo[3.1.0]hexan-3-one

01.3: 16 residues within 4Å: Chain A: S.173, L.195, S.196, E.197, D.198, H.199, A.200, F.256, C.259, A.260, Y.294, M.296, Y.337, M.340, Y.341, E.381 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.195, A:L.195, A:F.256, A:F.256, A:A.260, A:Y.337, A:Y.337, A:Y.337, A:M.340, A:Y.341, A:Y.341 Hydrogen bonds: A:Y.294

1 x K: POTASSIUM ION(Non-covalent)

K.4: 5 residues within 4Å: Chain A: Y.369, N.370, K.440, W.441, E.443 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Y.369, A:K.440, A:E.443, H2O.4, H2O.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chapsal, B.D. et al., Design of Potent Menin-KMT2A Interaction Inhibitors with Improved In Vitro ADME Properties and Reduced hERG Affinity. Acs Med.Chem.Lett. (2024)

Release Date

2025-01-15

Peptides

Menin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Menin

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