SMTL ID : 3o99.1

Crystal Structure of wild-type HIV-1 Protease in complex with kd13

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 3 residues within 4Å: Chain A: R.14, G.16, G.17 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.16, A:G.17 Salt bridges: A:R.14 PO4.3: 2 residues within 4Å: Chain B: P.39, G.40 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.40

1 x K13: (3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl [(1S,2R)-3-{[(4-aminophenyl)sulfonyl][(2S)-2-methylbutyl]amino}-1-benzyl-2-hydroxypropyl]carbamate(Non-covalent)

K13.2: 24 residues within 4Å: Chain A: L.23, D.25, G.27, A.28, D.29, D.30, V.32, G.48, G.49, I.50 Chain B: R.8, L.23, D.25, G.27, A.28, D.30, V.32, I.47, G.48, G.49, I.50, P.81, V.82, I.84 19 PLIP interactions: 11 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:L.23, B:A.28, B:V.32, B:P.81, B:V.82, B:I.84, A:L.23 Hydrogen bonds: B:D.29, B:D.30, B:D.30, A:D.25, A:G.27, A:G.27, A:D.29, A:D.30 Water bridges: B:I.50, A:I.50 Salt bridges: B:D.25, A:D.25

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 1 residues within 4Å: Chain B: P.1 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:P.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nalam, M.N. et al., Substrate envelope-designed potent HIV-1 protease inhibitors to avoid drug resistance. Chem.Biol. (2013)

Release Date

2011-08-10

Peptides

Pol polyprotein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pol polyprotein

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