SMTL ID : 4gq3.1

Human menin with bound inhibitor MI-2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.56 Å

Oligo State

monomer

Ligands

1 x 0RO: 4-[4-(5,5-dimethyl-4,5-dihydro-1,3-thiazol-2-yl)piperazin-1-yl]-6-propylthieno[2,3-d]pyrimidine(Non-covalent)

0RO.1: 17 residues within 4Å: Chain A: S.140, L.162, S.163, E.164, D.165, H.166, F.223, C.226, Y.261, M.263, Y.304, M.307, Y.308, E.348 Ligands: UNX.3, UNX.4, UNX.6 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:M.307

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

PEG.2: 1 residues within 4Å: Chain A: T.61 1 PLIP interactions: 1 interactions with chain A Water bridges: A:L.60

5 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.3: 6 residues within 4Å: Chain A: F.223 Ligands: 0RO.1, UNX.4, UNX.5, UNX.6, UNX.7 No protein-ligand interaction detected (PLIP) UNX.4: 5 residues within 4Å: Ligands: 0RO.1, UNX.3, UNX.5, UNX.6, UNX.7 No protein-ligand interaction detected (PLIP) UNX.5: 7 residues within 4Å: Chain A: S.140, F.223, A.227 Ligands: UNX.3, UNX.4, UNX.6, UNX.7 No protein-ligand interaction detected (PLIP) UNX.6: 8 residues within 4Å: Chain A: F.223, C.226, A.227 Ligands: 0RO.1, UNX.3, UNX.4, UNX.5, UNX.7 No protein-ligand interaction detected (PLIP) UNX.7: 4 residues within 4Å: Ligands: UNX.3, UNX.4, UNX.5, UNX.6 No protein-ligand interaction detected (PLIP)

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

SO4.8: 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, A:V.65 SO4.9: 4 residues within 4Å: Chain A: S.117, Y.118, F.119, R.122 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.117, A:F.119 Salt bridges: A:R.122 SO4.10: 5 residues within 4Å: Chain A: V.170, G.175, E.176, Y.212, R.214 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.176, A:Y.212 Water bridges: A:R.214 Salt bridges: A:R.214 SO4.11: 6 residues within 4Å: Chain A: R.317, N.318, V.319, R.320, S.375, A.376 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.319, A:R.320, A:A.376 Water bridges: A:R.317, A:R.320 Salt bridges: A:R.320 SO4.12: 2 residues within 4Å: Chain A: S.115, R.116 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shi, A. et al., Structural insights into inhibition of the bivalent menin-MLL interaction by small molecules in leukemia. Blood (2012)

Release Date

2012-09-19

Peptides

Menin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Menin

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