SMTL ID : 6gjn.1

Cyclophilin A complexed with tri-vector ligand 15.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x F0Q: 1-[(4-aminophenyl)methyl]-3-[2-[(2~{R})-2-(2-bromophenyl)pyrrolidin-1-yl]-2-oxidanylidene-ethyl]-1-[(2-methyl-1,2,3,4-tetrazol-5-yl)methyl]urea(Non-covalent)

F0Q.1: 16 residues within 4Å: Chain A: H.54, R.55, F.60, M.61, Q.63, G.72, A.101, N.102, A.103, T.107, G.109, Q.111, F.113, L.122, H.126 Ligands: FMT.3 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:A.101, A:A.103, A:Q.111, A:F.113, A:L.122 Hydrogen bonds: A:R.55, A:Q.63, A:N.102, A:N.102 Water bridges: A:R.55, A:R.55, A:G.74, A:G.75, A:G.75, A:A.101, A:T.107, A:Q.111, A:Q.111 pi-Cation interactions: A:R.55

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

FMT.2: 2 residues within 4Å: Chain A: T.68, G.75 No protein-ligand interaction detected (PLIP) FMT.3: 2 residues within 4Å: Chain A: R.55 Ligands: F0Q.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.55, A:R.55

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: K.82, F.83, E.84, N.106 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.84, A:N.106 Water bridges: A:K.31, A:K.82, A:K.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

De Simone, A. et al., A computationally designed binding mode flip leads to a novel class of potent tri-vector cyclophilin inhibitors. Chem Sci (2019)

Release Date

2018-11-07

Peptides

Peptidyl-prolyl cis-trans isomerase A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptidyl-prolyl cis-trans isomerase A

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