SMTL ID : 3wsj.1 (1 other biounit)

HTLV-1 protease in complex with the HIV-1 protease inhibitor Indinavir

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

1 x MK1: N-[2(R)-HYDROXY-1(S)-INDANYL]-5-[(2(S)-TERTIARY BUTYLAMINOCARBONYL)-4(3-PYRIDYLMETHYL)PIPERAZINO]-4(S)-HYDROXY-2(R)-PHENYLMETHYLPENTANAMIDE(Non-covalent)

MK1.1: 23 residues within 4Å: Chain A: R.10, L.30, D.32, G.34, A.35, D.36, M.37, V.39, L.57, L.91, W.98, A.99, I.100 Chain B: R.10, L.30, D.32, G.34, A.35, M.37, V.56, L.57, W.98, I.100 20 PLIP interactions: 12 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:A.35, A:V.39, A:L.91, A:W.98, A:W.98, B:L.30, B:A.35, B:V.56, B:I.100 Hydrogen bonds: A:R.10, A:D.32, A:G.34, A:G.34, A:D.36 Salt bridges: A:D.32, B:D.32 pi-Cation interactions: A:W.98 Water bridges: B:G.34, B:D.36 pi-Stacking: B:W.98

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

SO4.2: 4 residues within 4Å: Chain A: P.4, R.9, R.10, P.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.4 SO4.3: 4 residues within 4Å: Chain A: P.7, A.8, R.10 Chain B: D.36 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:D.36 Water bridges: A:R.10 Salt bridges: A:R.10 SO4.4: 1 residues within 4Å: Chain A: R.9 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.9 SO4.5: 5 residues within 4Å: Chain A: Q.16, P.24, K.25, T.26 Ligands: SO4.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.16, A:P.24, A:T.26, A:T.26 SO4.6: 4 residues within 4Å: Chain A: Q.16, T.26 Ligands: SO4.5, PG4.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.26 SO4.7: 1 residues within 4Å: Chain A: Q.20 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.20 SO4.8: 5 residues within 4Å: Chain A: L.78, T.83, I.85, Q.108, C.109 No protein-ligand interaction detected (PLIP) SO4.9: 2 residues within 4Å: Chain A: V.86, Q.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.86 SO4.10: 4 residues within 4Å: Chain A: F.80, R.81, T.82, T.83 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.82, A:T.83, A:T.83 SO4.11: 3 residues within 4Å: Chain A: I.27, E.28, A.99 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.28, A:E.28 SO4.13: 4 residues within 4Å: Chain B: K.14, A.15, T.26, P.79 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.14, B:T.26 SO4.14: 5 residues within 4Å: Chain B: R.81, T.83, I.85, Q.108, C.109 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.108 Water bridges: B:R.81 Salt bridges: B:R.81 SO4.15: 5 residues within 4Å: Chain B: I.27, E.28, P.41, N.97, A.99 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.28

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.12: 8 residues within 4Å: Chain A: K.14, Q.16, T.26, R.77, L.78, P.79, R.81 Ligands: SO4.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.80

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuhnert, M. et al., Structural basis for HTLV-1 protease inhibition by the HIV-1 protease inhibitor indinavir. J.Med.Chem. (2014)

Release Date

2014-10-22

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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