SMTL ID : 6ika.2 (1 other biounit)

HIV-1 reverse transcriptase with Q151M/G112S/D113A/Y115F/F116Y/F160L/I159L:DNA:entecavir-triphosphate ternary complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ET9: [[(1R,3S,5S)-3-(2-azanyl-6-oxidanylidene-3H-purin-9-yl)-2-methylidene-5-oxidanyl-cyclopentyl]methoxy-oxidanyl-phosphory l] phosphono hydrogen phosphate(Non-covalent)

ET9.1: 17 residues within 4Å: Chain A: K.67, R.74, L.76, D.112, V.113, S.114, A.115, A.116, F.117, M.153, G.154, M.186, D.187 Chain C: C.5, G.6, C.38 Ligands: MG.3 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.117, A:F.117, A:M.186 Hydrogen bonds: A:A.115, A:A.116, A:F.117, A:G.154 Salt bridges: A:K.67, A:K.67, A:R.74

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: K.368, T.371, Q.409, A.410, T.411 Chain B: I.409, Q.410, T.413 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.411, B:Q.410 Water bridges: A:T.371, A:T.371 GOL.4: 8 residues within 4Å: Chain A: L.94, V.383 Chain B: Q.39, W.40, P.41, P.149, S.150, N.153 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.39, B:S.150, B:N.153 Water bridges: B:L.42, B:N.153

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: D.112, V.113, D.187 Ligands: ET9.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.112, A:V.113, A:D.187

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yasutake, Y. et al., Active-site deformation in the structure of HIV-1 RT with HBV-associated septuple amino acid substitutions rationalizes the differential susceptibility of HIV-1 and HBV against 4'-modified nucleoside RT inhibitors. Biochem. Biophys. Res. Commun. (2019)

Release Date

2019-01-30

Peptides

HIV-1 RT p66 subunit: A
HIV-1 RT p51 subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

HIV-1 RT p66 subunit

HIV-1 RT p51 subunit

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