SMTL ID : 6exo.1 (1 other biounit)

Crystal Structure of Rhodesain in complex with a Macrolactam Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: T.58, W.74, S.78 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.58, A:T.58 EDO.2: 4 residues within 4Å: Chain A: Q.39, G.42, N.43, P.44 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.39, A:G.42 Water bridges: A:L.45 EDO.3: 3 residues within 4Å: Chain A: E.86, P.90, Y.91 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.91, A:Y.91 EDO.5: 3 residues within 4Å: Chain A: D.114, V.116, V.213 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.114, A:D.114 EDO.6: 4 residues within 4Å: Chain A: D.69, N.73, H.115, D.117 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.73, A:D.117 EDO.7: 5 residues within 4Å: Chain A: W.38, N.43, P.44, V.46, G.109 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.38 EDO.8: 5 residues within 4Å: Chain A: D.18, Q.19, G.20, W.184 Ligands: EDO.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.18, A:G.20 EDO.9: 4 residues within 4Å: Chain A: D.18, G.20, G.94 Ligands: EDO.8 No protein-ligand interaction detected (PLIP) EDO.10: 6 residues within 4Å: Chain A: Q.51, Y.89, P.90, V.92, P.99, Q.102 No protein-ligand interaction detected (PLIP) EDO.11: 5 residues within 4Å: Chain A: G.80, G.81, A.111, I.112, T.113 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.80 EDO.12: 1 residues within 4Å: Chain A: R.195 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.195, A:R.195

1 x C3E: (3~{S},14~{E})-19-chloranyl-~{N}-(1-cyanocyclopropyl)-5-oxidanylidene-12,17-dioxa-4-azatricyclo[16.2.2.0^{6,11}]docosa-1(21),6(11),7,9,14,18(22),19-heptaene-3-carboxamide(Non-covalent)

C3E.4: 14 residues within 4Å: Chain A: Q.19, G.23, S.24, C.25, W.26, G.64, G.65, G.66, L.67, M.68, A.138, L.160, D.161, H.162 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.67, A:L.160 Hydrogen bonds: A:Q.19, A:G.66, A:G.66, A:D.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Giroud, M. et al., Repurposing a Library of Human Cathepsin L Ligands: Identification of Macrocyclic Lactams as Potent Rhodesain and Trypanosoma brucei Inhibitors. J. Med. Chem. (2018)

Release Date

2018-04-11

Peptides

Cysteine protease: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cysteine protease

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