SMTL ID : 7yf6.1

Crystal structure of HIV-1 protease in complex with macrocyclic peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

homo-dimer

Ligands

1 x PHE- VAL- PRO- VAL- LEU- TRP- LEU- MEA- ESD: Macrocyclic Peptide(Non-covalent)

PHE-VAL-PRO-VAL-LEU-TRP-LEU-MEA-ESD.1: 29 residues within 4Å: Chain A: R.8, L.23, D.25, G.27, A.28, I.47, G.48, G.49, I.50, I.54, P.79, T.80, P.81, I.84 Chain B: D.25, G.27, A.28, D.29, D.30, V.32, K.45, I.47, G.48, G.49, I.50, T.80, P.81, V.82, I.84 21 PLIP interactions: 10 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:D.29, B:V.32, B:I.47, B:I.50, B:P.81, B:V.82, B:I.84, A:L.23, A:A.28, A:I.47, A:I.50, A:I.54, A:I.54, A:P.81, A:I.84 Hydrogen bonds: B:D.29, B:D.30, B:D.30, A:I.50 Water bridges: A:D.25 pi-Cation interactions: A:R.8

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain B: V.11, T.12, C.67 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kusumoto, Y. et al., Highly Potent and Oral Macrocyclic Peptides as a HIV-1 Protease Inhibitor: mRNA Display-Derived Hit-to-Lead Optimization. Acs Med.Chem.Lett. (2022)

Release Date

2022-11-02

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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