SMTL ID : 5ddc.1

Menin in complex with MI-2-3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

monomer

Ligands

1 x 59V: 6-(2,2,2-trifluoroethyl)-4-{4-[5-(trifluoromethyl)-1,3,4-thiadiazol-2-yl]piperazin-1-yl}thieno[2,3-d]pyrimidine(Non-covalent)

59V.1: 17 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 Ligands: DMS.2, DMS.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.261, A:N.267 pi-Stacking: A:Y.304, A:Y.308 Halogen bonds: A:Y.304

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

DMS.2: 6 residues within 4Å: Chain A: S.140, F.223, C.226, A.227 Ligands: 59V.1, DMS.4 No protein-ligand interaction detected (PLIP) DMS.3: 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.4: 6 residues within 4Å: Chain A: S.140, F.223, C.226, A.227 Ligands: 59V.1, DMS.2 No protein-ligand interaction detected (PLIP) DMS.6: 6 residues within 4Å: Chain A: V.170, G.175, E.176, T.178, Y.212, R.214 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.214

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.5: 2 residues within 4Å: Chain A: K.347, F.350 No protein-ligand interaction detected (PLIP)

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

PEG.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

EPE.8: 2 residues within 4Å: Chain A: V.55, N.56 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

2016-07-06

Peptides

Menin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Menin

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