SMTL ID : 2rki.1

Crystal Structure of HIV-1 Reverse Transcriptase (RT) in Complex with a triazole derived NNRTI

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

1 x TT1: 4-benzyl-3-[(2-chlorobenzyl)sulfanyl]-5-thiophen-2-yl-4H-1,2,4-triazole(Non-covalent)

TT1.1: 16 residues within 4Å: Chain A: L.100, K.103, V.106, V.179, I.180, Y.181, Y.188, G.190, P.225, F.227, W.229, L.234, H.235, P.236, Y.318 Chain B: E.138 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.100, A:V.106, A:V.179, A:Y.181, A:Y.188, A:Y.188, A:P.225, A:F.227, A:W.229, A:L.234, A:P.236 Hydrogen bonds: A:K.103 pi-Stacking: A:W.229

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: V.261, N.265, C.280 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.265

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

SO4.3: 5 residues within 4Å: Chain A: G.436, A.437, N.460, R.461 Ligands: SO4.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.436, A:N.460 Salt bridges: A:R.461 SO4.4: 2 residues within 4Å: Chain A: G.436, R.461 2 PLIP interactions: 2 interactions with chain A Water bridges: A:L.491 Salt bridges: A:R.461 SO4.5: 4 residues within 4Å: Chain A: N.460 Chain B: A.288, E.291 Ligands: SO4.3 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.460, A:N.460, B:A.288 SO4.6: 3 residues within 4Å: Chain A: S.515, E.516, L.517 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.516, A:L.517 Water bridges: A:S.515, A:S.515 SO4.7: 4 residues within 4Å: Chain A: Y.183, L.228, W.229, M.230 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.228, A:M.230 Water bridges: A:G.231, A:G.231, A:G.231

5 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 2 residues within 4Å: Chain A: N.255, K.259 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain B: H.235, W.239 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Chain B: R.199 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain B: K.126 Ligand excluded by PLIP CL.13: 2 residues within 4Å: Chain B: Y.318, Y.319 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-covalent)

MG.9: 2 residues within 4Å: Chain A: M.184, D.186 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kirschberg, T.A. et al., Triazole derivatives as non-nucleoside inhibitors of HIV-1 reverse transcriptase-structure-activity relationships and crystallographic analysis. Bioorg.Med.Chem.Lett. (2008)

Release Date

2008-04-22

Peptides

HIV-1 reverse transcriptase (RT) p66: A
HIV-1 reverse transcriptase (RT) p51: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

HIV-1 reverse transcriptase (RT) p66

HIV-1 reverse transcriptase (RT) p51

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