SMTL ID : 5hu9.1

Crystal structure of ABL1 in complex with CHMFL-074

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

monomer

Ligands

2 x 66K: 4-[(4-methylpiperazin-1-yl)methyl]-N-(4-methyl-3-{[1-(pyridin-3-ylcarbonyl)piperidin-4-yl]oxy}phenyl)-3-(trifluoromethyl)benzamide(Non-covalent)

66K.1: 24 residues within 4Å: Chain A: L.25, V.33, A.46, V.47, K.48, E.63, M.67, I.70, L.75, V.76, I.90, T.92, E.93, F.94, M.95, G.98, L.131, I.137, H.138, L.147, V.156, A.157, D.158, F.159 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:V.33, A:K.48, A:E.63, A:I.90, A:T.92, A:L.147, A:L.147, A:D.158, A:F.159, A:F.159 Hydrogen bonds: A:E.63, A:M.95, A:D.158 pi-Stacking: A:F.94 pi-Cation interactions: A:K.48, A:H.138 Halogen bonds: A:V.156 66K.2: 9 residues within 4Å: Chain A: R.163, L.164, M.165, F.178, I.180, L.188, A.189, Y.190, Y.226 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.164, A:Y.226 Hydrogen bonds: A:M.165 Water bridges: A:N.191 pi-Stacking: A:Y.226

12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 7 residues within 4Å: Chain A: Y.30, N.99, R.144, F.159, L.161, H.173, A.176 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.99, A:H.173 EDO.4: 1 residues within 4Å: Chain A: E.15 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.15 EDO.5: 3 residues within 4Å: Chain A: M.21, Y.34, Y.89 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.49 EDO.6: 5 residues within 4Å: Chain A: K.11, W.12, M.14, W.38, L.79 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.79 Water bridges: A:K.40 EDO.7: 3 residues within 4Å: Chain A: N.113, A.114, Y.212 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.114, A:Y.212 EDO.8: 2 residues within 4Å: Chain A: F.270, E.271 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.271 Water bridges: A:H.267 EDO.9: 3 residues within 4Å: Chain A: A.251, E.265, A.269 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.244, A:E.247 EDO.10: 3 residues within 4Å: Chain A: I.137, F.193, S.194 2 PLIP interactions: 2 interactions with chain A Water bridges: A:F.193, A:F.193 EDO.11: 4 residues within 4Å: Chain A: Y.103, E.106, C.107 Ligands: EDO.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.103 EDO.12: 5 residues within 4Å: Chain A: Y.97, Y.103, E.111, H.152 Ligands: EDO.11 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.103 Water bridges: A:E.111 EDO.13: 1 residues within 4Å: Chain A: Q.275 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.275 EDO.14: 1 residues within 4Å: Chain A: V.37 No protein-ligand interaction detected (PLIP)

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.15: 3 residues within 4Å: Chain A: K.51, E.52, D.53 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, F. et al., Discovery and characterization of a novel potent type II native and mutant BCR-ABL inhibitor (CHMFL-074) for Chronic Myeloid Leukemia (CML). Oncotarget (2016)

Release Date

2016-07-13

Peptides

Tyrosine-protein kinase ABL1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tyrosine-protein kinase ABL1

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