SMTL ID : 6spt.1

High resolution crystal structure of N-terminal domain of PEX14 from Trypanosoma brucei in complex with the fist compound with sub-micromolar trypanocidal activity

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

monomer

Ligands

1 x FTW: 5-[(4-methoxynaphthalen-1-yl)methyl]-1-[2-[(2-methyl-1-oxidanyl-propan-2-yl)amino]ethyl]-~{N}-(naphthalen-1-ylmethyl)-6,7-dihydro-4~{H}-pyrazolo[4,3-c]pyridine-3-carboxamide(Non-covalent)

FTW.1: 15 residues within 4Å: Chain A: K.12, R.13, N.16, A.17, E.19, F.20, D.23, R.25, V.26, T.29, S.33, F.37, L.38, K.41, L.43 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:N.16, A:R.25, A:V.26, A:L.38, A:K.41, A:L.43 Hydrogen bonds: A:E.19, A:E.19 Water bridges: A:N.16, A:K.41 pi-Stacking: A:F.20, A:F.20, A:F.37

3 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.2: 3 residues within 4Å: Chain A: E.46, C.49, E.50 No protein-ligand interaction detected (PLIP) BME.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) BME.4: 3 residues within 4Å: Chain A: P.58, T.60 Ligands: CL.7 No protein-ligand interaction detected (PLIP)

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

CL.5: 1 residues within 4Å: Chain A: K.54 Ligand excluded by PLIP CL.6: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain A: K.59, T.60, E.63 Ligands: BME.4 Ligand excluded by PLIP CL.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dawidowski, M. et al., Structure-Activity Relationship in Pyrazolo[4,3-c]pyridines, First Inhibitors of PEX14-PEX5 Protein-Protein Interaction with Trypanocidal Activity. J.Med.Chem. (2020)

Release Date

2020-01-01

Peptides

Peroxin 14: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peroxin 14

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