SMTL ID : 3nxe.1

X-ray structure of ester chemical analogue 'covalent dimer' [Ile50,O-Ile50']HIV-1 protease complexed with MVT-101 inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.61 Å

Oligo State

monomer

Ligands

1 x 2NC: N-{(2S)-2-[(N-ACETYL-L-THREONYL-L-ISOLEUCYL)AMINO]HEXYL}-L-NORLEUCYL-L-GLUTAMINYL-N~5~-[AMINO(IMINIO)METHYL]-L-ORNITHINAMIDE(Non-covalent)

2NC.1: 25 residues within 4Å: Chain A: R.8, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, P.81, V.82, R.112, L.127, D.129, G.131, A.132, D.133, D.134, G.152, G.153, X.154, P.185, V.186, I.188 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:A.28, A:I.50, A:P.81, A:L.127, A:D.134, A:P.185, A:V.186 Hydrogen bonds: A:G.27, A:D.29, A:D.29, A:D.30, A:D.30, A:G.48, A:G.48, A:R.112, A:G.131, A:D.133, A:G.152, A:G.152 Water bridges: A:G.152, A:G.152

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

SO4.2: 6 residues within 4Å: Chain A: I.176, G.177, T.178, N.192, Q.196 Ligands: SO4.5 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.178, A:T.178, A:N.192, A:Q.196 Water bridges: A:T.178, A:T.178 SO4.3: 4 residues within 4Å: Chain A: R.118, I.119, G.120, G.121 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.120, A:G.121 SO4.4: 2 residues within 4Å: Chain A: K.149, L.150 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.149, A:K.149 Salt bridges: A:K.149 SO4.5: 6 residues within 4Å: Chain A: L.5, W.6, R.191, N.192, T.195 Ligands: SO4.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.191, A:T.195 Water bridges: A:W.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Torbeev, V.Y. et al., Protein conformational dynamics in the mechanism of HIV-1 protease catalysis. Proc.Natl.Acad.Sci.USA (2011)

Release Date

2011-11-02

Peptides

protease covalent dimer: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

protease covalent dimer

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