SMTL ID : 7m9m.1

HIV-1 Protease WT (NL4-3) in Complex with LR3-55

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

homo-dimer

Ligands

1 x YWS: diethyl ({4-[(2S,3R)-2-[({[(3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl]oxy}carbonyl)amino]-3-hydroxy-4-({4-[(1S)-1-hydroxyethyl]benzene-1-sulfonyl}[(2S)-2-methylbutyl]amino)butyl]phenoxy}methyl)phosphonate(Non-covalent)

YWS.1: 32 residues within 4Å: Chain A: L.23, D.25, G.27, A.28, D.29, D.30, V.32, K.45, I.47, G.48, G.49, I.50, L.76, P.81, V.82, I.84 Chain B: L.23, D.25, G.27, A.28, D.29, D.30, V.32, I.47, G.48, G.49, I.50, G.52, F.53, P.81, V.82, I.84 22 PLIP interactions: 11 interactions with chain A, 11 interactions with chain B Hydrophobic interactions: A:A.28, A:V.32, A:I.47, A:L.76, A:P.81, A:I.84, B:L.23, B:F.53, B:V.82 Hydrogen bonds: A:D.29, A:D.30, A:D.30, A:D.30, B:D.25, B:G.27, B:G.27, B:D.29, B:D.30 Salt bridges: A:D.25, B:D.25 Water bridges: B:I.50, B:I.50

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain B: K.7, R.8, L.10 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Water bridges: A:R.87, B:R.8 Hydrogen bonds: B:R.8 SO4.3: 3 residues within 4Å: Chain B: G.68, H.69, K.70 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.68, B:K.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lockbaum, G.J. et al., HIV-1 Protease in Complex with ligands. To Be Published

Release Date

2022-04-20

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Protease

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