SMTL ID : 2q3k.1

Crystal Structure of Lysine Sulfonamide Inhibitor Reveals the Displacement of the Conserved Flap Water Molecule in HIV-1 Protease

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 2 residues within 4Å: Chain A: P.1 Chain B: F.99 No protein-ligand interaction detected (PLIP) PO4.5: 3 residues within 4Å: Chain B: G.16, G.17, P.63 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.16, B:G.17 Water bridges: B:R.14, B:G.16 Salt bridges: B:R.14

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

ACT.2: 4 residues within 4Å: Chain A: K.20, E.21, E.34, N.83 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.21, A:E.34, A:N.83 ACT.3: 4 residues within 4Å: Chain A: W.6, K.7, R.8 Chain B: R.87 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:R.87, A:R.8 Hydrogen bonds: A:R.8 ACT.6: 4 residues within 4Å: Chain A: T.4 Chain B: T.91, G.94, T.96 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.91

1 x MUW: N-{(5S)-5-[{[4-(AMINOMETHYL)PHENYL]SULFONYL}(ISOBUTYL)AMINO]-6-HYDROXYHEXYL}-NALPHA-(METHOXYCARBONYL)-BETA-PHENYL-L-PHENYLALANINAMIDE(Non-covalent)

MUW.4: 23 residues within 4Å: Chain A: L.23, D.25, G.27, A.28, D.29, I.47, G.48, G.49, I.50, V.82, I.84 Chain B: R.8, L.23, D.25, G.27, A.28, D.30, G.48, G.49, I.50, P.81, V.82, I.84 22 PLIP interactions: 12 interactions with chain B, 10 interactions with chain A Hydrophobic interactions: B:L.23, B:A.28, B:I.50, B:P.81, B:P.81, B:V.82, B:I.84, A:L.23, A:I.50, A:V.82, A:I.84 Hydrogen bonds: B:R.8, B:D.25, B:D.30, B:I.50, A:D.29, A:D.29, A:G.48, A:G.48, A:I.50 Water bridges: B:D.29 Salt bridges: A:D.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nalam, M.N. et al., Crystal structure of lysine sulfonamide inhibitor reveals the displacement of the conserved flap water molecule in human immunodeficiency virus type 1 protease. J.Virol. (2007)

Release Date

2007-08-21

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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