SMTL ID : 3o9f.1

Crystal Structure of wild-type HIV-1 Protease in complex with kd27

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

1 x K2D: (3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl [(1S,2R)-1-benzyl-3-{(2-ethylbutyl)[(4-methoxyphenyl)sulfonyl]amino}-2-hydroxypropyl]carbamate(Non-covalent)

K2D.1: 24 residues within 4Å: Chain A: D.25, G.27, A.28, D.29, D.30, G.48, G.49, I.50, P.81, I.84 Chain B: R.8, L.23, D.25, G.27, A.28, D.29, D.30, V.32, G.48, G.49, I.50, P.81, V.82, I.84 20 PLIP interactions: 9 interactions with chain A, 11 interactions with chain B Hydrophobic interactions: A:P.81, A:I.84, B:L.23, B:A.28, B:V.32, B:I.50, B:P.81, B:V.82, B:I.84 Hydrogen bonds: A:D.25, A:G.27, A:G.27, A:D.29, A:D.30, B:D.29, B:D.30 Water bridges: A:I.50, B:I.50 Salt bridges: A:D.25, B:D.25

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

ACT.2: 3 residues within 4Å: Chain A: K.20, E.21, N.83 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.21, A:N.83 Water bridges: A:K.20 Salt bridges: A:K.20 ACT.3: 2 residues within 4Å: Chain A: M.36, N.37 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:M.36, A:N.37 Hydrogen bonds: A:N.37 ACT.4: 3 residues within 4Å: Chain A: G.68, H.69, K.70 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.70 Hydrogen bonds: A:K.70 Salt bridges: A:H.69

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

PO4.5: 3 residues within 4Å: Chain B: G.16, P.63, E.65 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.14, B:G.16 Water bridges: B:P.63

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

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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