SMTL ID : 6r8l.1

Human Cyclophilin D in complex with 1-((1S,9S,10S)-10-Hydroxy-12-oxa-8-aza-tricyclo[7.3.1.02,7]trideca-2,4,6-trien-4-ylmethyl)-3- {2-[(R)-2-(2-methylsulfanyl-phenyl)-pyrrolidin-1-yl]-2-oxo-ethyl}-urea

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

monomer

Ligands

1 x JUZ: 1-[2-[(2~{R})-2-(2-methylsulfanylphenyl)pyrrolidin-1-yl]-2-oxidanylidene-ethyl]-3-[[(1~{S},9~{S},10~{S})-10-oxidanyl-12-oxa-8-azatricyclo[7.3.1.0^{2,7}]trideca-2(7),3,5-trien-4-yl]methyl]urea(Non-covalent)

JUZ.1: 18 residues within 4Å: Chain A: R.54, F.59, M.60, Q.62, G.71, T.72, G.73, G.74, S.80, A.100, N.101, A.102, T.106, G.108, Q.110, F.112, L.121, H.125 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:F.59, A:F.59, A:A.102, A:Q.110, A:F.112, A:L.121 Hydrogen bonds: A:R.54, A:Q.62, A:G.74, A:N.101, A:N.101, A:N.101 Water bridges: A:R.54, A:R.54, A:A.100, A:S.109, A:Q.110, A:Q.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gradler, U. et al., Discovery of novel Cyclophilin D inhibitors starting from three dimensional fragments with millimolar potencies. Bioorg.Med.Chem.Lett. (2019)

Release Date

2019-11-27

Peptides

Peptidyl-prolyl cis-trans isomerase F, mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptidyl-prolyl cis-trans isomerase F, mitochondrial

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