SMTL ID : 4og8.1

Human menin with bound inhibitor MIV-6R

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

monomer

Ligands

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

TBF.1: 4 residues within 4Å: Chain A: D.138, S.139, S.140 Ligands: 2SF.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.139, A:S.139, A:S.140 TBF.11: 1 residues within 4Å: Ligands: 2SF.2 No protein-ligand interaction detected (PLIP)

1 x 2SF: 4-(3-{4-[(R)-amino(cyclopentyl)phenylmethyl]piperidin-1-yl}propoxy)benzonitrile(Non-covalent)

2SF.2: 17 residues within 4Å: Chain A: S.140, S.163, E.164, D.165, H.166, F.223, C.226, A.227, M.263, Y.304, M.307, Y.308, G.311, W.326, E.348 Ligands: TBF.1, TBF.11 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.223, A:A.227, A:Y.304, A:M.307

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

PG4.3: 4 residues within 4Å: Chain A: Y.346, K.347, F.350, H.406 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.346 Water bridges: A:Y.346

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

SO4.4: 1 residues within 4Å: Chain A: R.317 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.317, A:R.317 Salt bridges: A:R.317 SO4.5: 2 residues within 4Å: Chain A: P.17, R.19 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.19 SO4.6: 2 residues within 4Å: Chain A: K.362, R.419 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.415 Salt bridges: A:R.419

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

DMS.7: 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.9: 1 residues within 4Å: Chain A: S.479 No protein-ligand interaction detected (PLIP) DMS.10: 5 residues within 4Å: Chain A: R.317, V.319, R.320, S.375, A.376 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.319, A:R.320

1 x PGA: 2-PHOSPHOGLYCOLIC ACID(Non-covalent)

PGA.8: 3 residues within 4Å: Chain A: W.111, K.120, W.183 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.120

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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