SMTL ID : 4og5.1

Human menin with bound inhibitor MIV-5

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.63 Å

Oligo State

monomer

Ligands

1 x 2S7: 4-(3-{4-[(S)-cyclopentyl(hydroxy)pyridin-2-ylmethyl]piperidin-1-yl}propoxy)benzonitrile(Non-covalent)

2S7.1: 17 residues within 4Å: Chain A: S.140, S.163, E.164, D.165, H.166, F.223, C.226, A.227, Y.261, M.263, Y.304, M.307, Y.308, G.311, W.326, E.348 Ligands: TBF.9 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.223, A:A.227, A:Y.304, A:M.307 Water bridges: A:Y.261

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

SO4.2: 4 residues within 4Å: Chain A: Y.118, F.119, R.122, K.136 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.119 Salt bridges: A:R.122 SO4.3: 2 residues within 4Å: Chain A: P.17, R.19 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.19

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 4 residues within 4Å: Chain A: Y.346, K.347, F.350, H.406 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.346

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 4 residues within 4Å: Chain A: W.111, S.115, K.120, W.183 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.120 Water bridges: A:W.111, A:L.114

3 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.6: 3 residues within 4Å: Chain A: F.48, F.52, P.64 2 PLIP interactions: 2 interactions with chain A Water bridges: A:V.65 pi-Cation interactions: A:F.52 DMS.7: 6 residues within 4Å: Chain A: R.317, N.318, V.319, R.320, S.375, A.376 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.319, A:R.320 Water bridges: A:R.320 DMS.8: 5 residues within 4Å: Chain A: V.170, G.175, E.176, Y.212, R.214 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.214

1 x TBF: TERT-BUTYL FORMATE(Non-functional Binders)

TBF.9: 1 residues within 4Å: Ligands: 2S7.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, S. et al., High-Affinity Small-Molecule Inhibitors of the Menin-Mixed Lineage Leukemia (MLL) Interaction Closely Mimic a Natural Protein-Protein Interaction. J.Med.Chem. (2014)

Release Date

2014-03-05

Peptides

Menin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Menin

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