SMTL ID : 3psu.1

HIV-1 protease in complex with an isobutyl decorated oligoamine (symmetric binding mode)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

homo-dimer

Ligands

2 x LJG: N,N'-(iminodiethane-2,1-diyl)bis[4-amino-N-(2-methylpropyl)benzenesulfonamide](Non-covalent)

LJG.1: 17 residues within 4Å: Chain A: D.25, G.27, A.28, D.30, V.32, I.47, G.48, G.49, I.50, L.76, I.84 Chain B: D.25, I.50, P.81, V.82, I.84 Ligands: LJG.3 14 PLIP interactions: 7 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:I.50, B:P.81, B:V.82, B:I.84, A:A.28, A:V.32, A:I.47 Hydrogen bonds: B:D.25, A:D.30 Water bridges: B:I.50, B:I.50, A:I.50, A:I.50 Salt bridges: A:D.25 LJG.3: 17 residues within 4Å: Chain A: D.25, I.50, P.81, V.82, I.84 Chain B: D.25, G.27, A.28, D.30, V.32, I.47, G.48, G.49, I.50, L.76, I.84 Ligands: LJG.1 15 PLIP interactions: 8 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:A.28, B:V.32, B:I.47, A:I.50, A:P.81, A:V.82, A:I.84 Hydrogen bonds: B:D.30, A:D.25 Water bridges: B:D.30, B:I.50, B:I.50, A:I.50, A:I.50 Salt bridges: B:D.25

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: G.73, T.74, N.88 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain B: G.73, T.74, N.88 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lindemann, I. et al., Multiple binding modes of a symmetric inhibitor in HIV-1 protease. To be Published

Release Date

2011-12-07

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Protease

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