SMTL ID : 7m9p.1

HIV-1 Protease (I84V) in Complex with LR3-55

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: K.14, I.15, G.16, G.17 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.17 Water bridges: A:K.14, A:K.14, A:G.16, A:G.16, A:L.63 Salt bridges: A:K.14 SO4.2: 4 residues within 4Å: Chain A: R.87 Chain B: K.7, R.8, L.10 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.8 Water bridges: B:R.8, B:R.8, A:R.87 SO4.3: 3 residues within 4Å: Chain B: G.68, H.69, K.70 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.68, B:K.70 Water bridges: B:K.70 Salt bridges: B:K.70 SO4.4: 3 residues within 4Å: Chain B: K.20, E.21, N.83 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:E.21, B:E.21, B:N.83 Water bridges: B:K.20, B:K.20 Salt bridges: B:K.20 SO4.5: 3 residues within 4Å: Chain B: Q.18, M.36, N.37 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.37, B:N.37 Water bridges: B:Q.18, B:Q.18 SO4.6: 1 residues within 4Å: Chain B: Q.58 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.58, B:Q.58

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.7: 33 residues within 4Å: Chain A: R.8, 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, V.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, V.84 22 PLIP interactions: 10 interactions with chain A, 12 interactions with chain B Hydrophobic interactions: A:A.28, A:V.32, A:I.47, A:V.82, B:F.53, B:V.82, B:V.84 Hydrogen bonds: A:D.29, A:D.30, A:D.30, B:D.25, B:G.27, B:G.27, B:D.29, B:D.30, B:D.30 Water bridges: A:R.8, A:D.29, B:I.50, B:I.50 Salt bridges: A:D.25, B:D.25

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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