SMTL ID : 8x22.1 (1 other biounit)

HIV-1 reverse transcriptase mutant Q151M/Y115F/F116Y/L74V:DNA:dGTP ternary complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

hetero-1-1-mer

Ligands

1 x DGT: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

DGT.1: 17 residues within 4Å: Chain A: K.67, R.74, D.112, V.113, G.114, D.115, A.116, F.117, M.153, G.154, M.186, D.187, K.222 Chain C: C.5, G.6, C.38 Ligands: MG.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.117 Hydrogen bonds: A:D.112, A:D.115, A:A.116, A:F.117 Salt bridges: A:K.67, A:K.67, A:R.74, A:R.74, A:K.222, A:K.222, A:K.222 pi-Cation interactions: A:R.74

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.112, V.113, D.187 Ligands: DGT.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.112, A:V.113, A:D.187

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: H.98, W.268, Q.271 Chain C: C.9, C.10, G.35 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.267, A:Q.271 Water bridges: A:K.352 GOL.4: 5 residues within 4Å: Chain A: K.368, T.371, W.403, T.411 Chain B: T.413 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:T.413, A:T.371, A:T.371, A:T.411 Water bridges: B:Q.410, A:K.360, A:A.410 GOL.5: 7 residues within 4Å: Chain A: L.94, V.383 Chain B: Q.39, W.40, P.41, P.149, N.153 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Q.39, B:N.153, A:L.94 Water bridges: B:S.150, B:N.153

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yasutake, Y. et al., Deviated binding of anti-HBV nucleoside analog E-CFCP-TP to the reverse transcriptase active site attenuates the effect of drug-resistant mutations. Sci Rep (2024)

Release Date

2024-07-17

Peptides

Pol protein (Fragment): A
HIV-1 RT p51 subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pol protein (Fragment)

HIV-1 RT p51 subunit

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