SMTL ID : 7ldy.1

HIV-1 Protease WT (NL4-3) in Complex with TMC-126

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: L.19, K.20, E.21, N.83 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.21, A:N.83 Water bridges: A:L.19, A:K.20, A:K.20, A:E.34 SO4.2: 5 residues within 4Å: Chain A: G.73, T.74, N.88, L.89, Q.92 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.74, A:T.74, A:N.88, A:Q.92 SO4.3: 4 residues within 4Å: Chain A: R.87 Chain B: K.7, R.8, L.10 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.87, B:R.8 SO4.4: 3 residues within 4Å: Chain B: Q.18, M.36, N.37 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.37, B:N.37 Water bridges: B:Q.18 SO4.5: 3 residues within 4Å: Chain B: G.68, H.69, K.70 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.70 Water bridges: B:H.69, B:H.69 Salt bridges: B:H.69

1 x DJR: (3R,3AS,6AR)-HEXAHYDROFURO[2,3-B]FURAN-3-YL [(1S,2R)-1-BENZYL-2-HYDROXY-3-{ISOBUTYL[(4-METHOXYPHENYL)SULFONYL]AMINO}PROPYL]CARBAMATE(Non-covalent)

DJR.6: 30 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, 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, P.81, V.82, I.84 19 PLIP interactions: 9 interactions with chain B, 10 interactions with chain A Hydrophobic interactions: B:L.23, B:I.84, A:A.28, A:V.32, A:P.81, A:V.82 Hydrogen bonds: B:G.27, B:G.27, B:D.29, B:D.30, A:D.25, A:D.29, A:D.30, A:D.30 Water bridges: B:D.29, B:I.50, A:I.50 Salt bridges: B:D.25, A: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

2022-07-06

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Protease

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