SMTL ID : 2j9j.1

Atomic-resolution Crystal Structure of Chemically-Synthesized HIV-1 Protease Complexed with Inhibitor JG-365

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.04 Å

Oligo State

hetero-1-1-mer

Ligands

1 x SER- LEU- ASN- JG3- ILE- VME: INHIBITOR MOLECULE JG365(Non-covalent)

SER-LEU-ASN-JG3-ILE-VME.1: 27 residues within 4Å: Chain A: R.8, D.25, G.27, A.28, D.29, D.30, K.45, 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.29, D.30, I.47, G.48, G.49, I.50, P.81, V.82, I.84 29 PLIP interactions: 15 interactions with chain A, 14 interactions with chain B Hydrophobic interactions: A:I.50, A:V.82, B:L.23, B:A.28, B:P.81, B:V.82, B:I.84 Hydrogen bonds: A:G.27, A:D.29, A:D.29, A:D.30, A:D.30, A:K.45, A:K.45, A:G.48, A:G.48, A:G.48, B:R.8, B:G.27, B:D.29, B:G.48, B:G.48 Water bridges: A:D.29, A:D.29, B:I.50, B:I.50, B:I.50, B:I.50 Salt bridges: A:D.25

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

SO4.2: 2 residues within 4Å: Chain A: P.1, H.69 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.69 Salt bridges: A:H.69 SO4.3: 1 residues within 4Å: Chain A: R.14 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.14, A:G.17 Salt bridges: A:R.14 SO4.6: 2 residues within 4Å: Chain B: P.1 Ligands: GOL.4 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:P.1 Water bridges: B:P.1, A:F.99

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 3 residues within 4Å: Chain A: F.99 Chain B: H.69 Ligands: SO4.6 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:F.99, B:H.69 Water bridges: A:F.99 GOL.5: 2 residues within 4Å: Chain A: V.11, T.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.12, A:T.12

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

ACT.7: 2 residues within 4Å: Chain B: R.14, K.70 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johnson, E.C.B. et al., Insights from Atomic-Resolution X-Ray Structures of Chemically Synthesized HIV-1 Protease in Complex with Inhibitors. J.Mol.Biol. (2007)

Release Date

2007-08-28

Peptides

PROTEASE: A
PROTEASE: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PROTEASE

PROTEASE

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