SMTL ID : 4gq4.1

Human menin with bound inhibitor MI-2-2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.27 Å

Oligo State

monomer

Ligands

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

0RT.1: 20 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: UNX.3, UNX.4, UNX.5, UNX.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:M.307, A:Y.308 Hydrogen bonds: A:N.267

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

UNX.2: 5 residues within 4Å: Chain A: A.227 Ligands: UNX.3, UNX.4, UNX.5, UNX.6 No protein-ligand interaction detected (PLIP) UNX.3: 7 residues within 4Å: Chain A: S.140, F.223 Ligands: 0RT.1, UNX.2, UNX.4, UNX.5, UNX.6 No protein-ligand interaction detected (PLIP) UNX.4: 5 residues within 4Å: Ligands: 0RT.1, UNX.2, UNX.3, UNX.5, UNX.6 No protein-ligand interaction detected (PLIP) UNX.5: 6 residues within 4Å: Chain A: F.223 Ligands: 0RT.1, UNX.2, UNX.3, UNX.4, UNX.6 No protein-ligand interaction detected (PLIP) UNX.6: 8 residues within 4Å: Chain A: F.223, C.226, A.227 Ligands: 0RT.1, UNX.2, UNX.3, UNX.4, UNX.5 No protein-ligand interaction detected (PLIP)

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

EPE.7: 1 residues within 4Å: Chain A: V.55 2 PLIP interactions: 2 interactions with chain A Water bridges: A:N.56, A:N.56

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

SO4.8: 2 residues within 4Å: Chain A: P.17, R.19 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.19 SO4.9: 3 residues within 4Å: Chain A: F.48, F.52, P.64 1 PLIP interactions: 1 interactions with chain A Water bridges: A:V.65 SO4.10: 4 residues within 4Å: Chain A: S.117, Y.118, F.119, K.136 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.119, A:R.122 SO4.11: 2 residues within 4Å: Chain A: K.362, R.419 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.419

2 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.12: 2 residues within 4Å: Chain A: L.60, T.61 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.57, A:R.57, A:R.57 PE4.13: 6 residues within 4Å: Chain A: W.111, N.112, L.114, S.115, K.120, W.183 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.112, A:L.114, A:W.183

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

DMS.14: 1 residues within 4Å: Chain A: S.479 No protein-ligand interaction detected (PLIP)

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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