SMTL ID : 2fnt.1

Crystal structure of a drug-resistant (V82A) inactive (D25N) HIV-1 protease complexed with AP2V variant of HIV-1 NC-p1 substrate.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.44 Å

Oligo State

hetero-2-1-mer

Ligands

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

ACT.1: 2 residues within 4Å: Chain A: K.7, R.8 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.8 Water bridges: A:R.8, A:R.8 Salt bridges: A:K.7, A:R.8 ACT.5: 2 residues within 4Å: Chain A: K.43, Q.58 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.58 Salt bridges: A:K.43 ACT.9: 2 residues within 4Å: Chain B: K.7, R.8 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.8

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

PO4.2: 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:E.21, A:N.83 Salt bridges: A:K.20 PO4.3: 4 residues within 4Å: Chain A: T.4, W.6 Chain B: T.91, G.94 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.94 PO4.4: 2 residues within 4Å: Chain A: G.16, P.63 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.16 PO4.6: 3 residues within 4Å: Chain B: G.68, H.69, K.70 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.68, B:K.70 Water bridges: B:H.69 Salt bridges: B:H.69 PO4.7: 3 residues within 4Å: Chain B: K.20, E.21, N.83 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.21, B:E.21, B:N.83 Water bridges: B:K.20 PO4.8: 3 residues within 4Å: Chain B: P.44, K.45, M.46 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:M.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Prabu-Jeyabalan, M. et al., Mechanism of substrate recognition by drug-resistant human immunodeficiency virus type 1 protease variants revealed by a novel structural intermediate. J.Virol. (2006)

Release Date

2006-09-05

Peptides

protease: AB
NC-p1 substrate PEPTIDE: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
P

protease

NC-p1 substrate PEPTIDE

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