SMTL ID : 4wgi.1

A Single Diastereomer of a Macrolactam Core Binds Specifically to Myeloid Cell Leukemia 1 (MCL1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 16 residues within 4Å: Chain A: N.13, D.15, K.16, W.63, A.64, D.66, R.67, E.112, E.154, P.155, Y.156, F.157, W.231, M.331, W.341, R.345 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:W.63, A:R.67, A:R.67, A:E.154, A:Y.156, A:R.345

1 x 3M6: (2S)-2-[(2S,3R)-10-{[(4-fluorophenyl)sulfonyl]amino}-3-methyl-2-[(methyl{[4-(trifluoromethyl)phenyl]carbamoyl}amino)methyl]-6-oxo-3,4-dihydro-2H-1,5-benzoxazocin-5(6H)-yl]propanoic acid(Non-covalent)

3M6.2: 12 residues within 4Å: Chain A: A.424, F.425, M.428, V.450, F.451, T.456, R.460, I.461, T.463, L.464, F.467, K.499 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.425, A:F.425, A:M.428, A:V.450, A:F.451, A:F.451, A:R.460, A:T.463, A:F.467, A:F.467 pi-Stacking: A:F.451

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: D.364 Ligands: FMT.11 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.364, H2O.2, H2O.2, H2O.3

10 x FMT: FORMIC ACID(Non-functional Binders)

FMT.4: 5 residues within 4Å: Chain A: K.16, Y.18, N.19, D.297, K.298 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.18, A:N.19, A:K.298 Water bridges: A:Y.18 FMT.5: 3 residues within 4Å: Chain A: H.65, M.331, N.333 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.333, A:N.333 Water bridges: A:N.333 FMT.6: 2 residues within 4Å: Chain A: P.92, K.306 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.306 Water bridges: A:D.88 FMT.7: 4 residues within 4Å: Chain A: P.335, Q.336, Y.372, D.493 No protein-ligand interaction detected (PLIP) FMT.8: 2 residues within 4Å: Chain A: F.195, D.198 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.198 Water bridges: A:N.202 FMT.9: 5 residues within 4Å: Chain A: I.200, K.201, A.351, A.352, G.354 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.201 FMT.10: 6 residues within 4Å: Chain A: Y.91, F.93, V.111, A.302, V.303, E.309 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.303 FMT.11: 6 residues within 4Å: Chain A: K.363, D.364, T.367, V.504, R.507 Ligands: MG.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.363, A:D.364, A:T.367 Water bridges: A:D.364 FMT.12: 1 residues within 4Å: Chain A: R.460 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.460 Water bridges: A:N.457, A:G.459 FMT.13: 5 residues within 4Å: Chain A: R.497, T.498, K.499, R.500, D.501 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.501

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fang, C. et al., Single Diastereomer of a Macrolactam Core Binds Specifically to Myeloid Cell Leukemia 1 (MCL1). Acs Med.Chem.Lett. (2014)

Release Date

2014-11-19

Peptides

Maltose-binding periplasmic protein,Induced myeloid leukemia cell differentiation protein Mcl-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Maltose-binding periplasmic protein,Induced myeloid leukemia cell differentiation protein Mcl-1

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