SMTL ID : 5ddd.1

menin in complex with MI-836

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.14 Å

Oligo State

monomer

Ligands

1 x 59X: 4-[4-(5,5-dimethyl-4,5-dihydro-1,3-thiazol-2-yl)piperazin-1-yl]-6-(2-fluoroethyl)thieno[2,3-d]pyrimidine(Non-covalent)

59X.1: 18 residues within 4Å: Chain A: S.140, L.162, S.163, E.164, D.165, H.166, A.167, F.223, C.226, Y.261, M.263, N.267, Y.304, M.307, Y.308, E.348 Ligands: DMS.6, DMS.7 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:M.307, A:Y.308 Hydrogen bonds: A:N.267

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

SO4.2: 1 residues within 4Å: Chain A: R.317 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.317 SO4.3: 4 residues within 4Å: Chain A: R.93, G.96, G.154, R.156 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.156 Salt bridges: A:R.93 SO4.4: 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 SO4.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

DMS.6: 6 residues within 4Å: Chain A: S.140, F.223, C.226, A.227 Ligands: 59X.1, DMS.7 No protein-ligand interaction detected (PLIP) DMS.7: 3 residues within 4Å: Chain A: S.140 Ligands: 59X.1, DMS.6 No protein-ligand interaction detected (PLIP) DMS.8: 3 residues within 4Å: Chain A: F.48, F.52, P.64 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:F.52 DMS.11: 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 PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.9: 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

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

PEG.10: 2 residues within 4Å: Chain A: W.111, S.115 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pollock, J. et al., Rational Design of Orthogonal Multipolar Interactions with Fluorine in Protein-Ligand Complexes. J.Med.Chem. (2015)

Release Date

2015-09-09

Peptides

Menin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Menin

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