SMTL ID : 7led.1

HIV-1 Protease WT (NL4-3) in Complex with PU4 (LR2-78)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain B: Q.18, K.20, M.36, N.37 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.37, B:N.37 SO4.2: 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

1 x XVM: diethyl [(4-{(2S,3R)-4-{[(2H-1,3-benzodioxol-5-yl)sulfonyl][(2S)-2-methylbutyl]amino}-2-[({[(3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl]oxy}carbonyl)amino]-3-hydroxybutyl}phenoxy)methyl]phosphonate(Non-covalent)

XVM.3: 32 residues within 4Å: Chain A: R.8, L.23, D.25, G.27, A.28, D.29, D.30, V.32, I.47, G.48, G.49, I.50, P.81, V.82, I.84 Chain B: R.8, 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 23 PLIP interactions: 12 interactions with chain A, 11 interactions with chain B Hydrophobic interactions: A:A.28, A:V.32, A:P.81, A:I.84, B:L.23, B:F.53, B:V.82 Hydrogen bonds: A:D.30, A:D.30, B:D.25, B:G.27, B:G.27, B:D.29, B:D.30 Water bridges: A:R.8, A:D.29, A:D.29, A:G.48, A:I.50, B:G.48, 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 Inhibitors with a P1 Phosphonate Modification Maintain Potency against Drug Resistant Variants by Increased van der Waals Contacts with Flaps Residues. To Be Published

Release Date

2022-01-26

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Protease

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