SMTL ID : 8x1z.2 (1 other biounit)

HIV-1 reverse transcriptase mutant Q151M/Y115F/F116Y:DNA:E-CFCP-TP ternary complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

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

1 x XTE: E-CFCP-triphosphate(Non-covalent)

XTE.2: 19 residues within 4Å: Chain A: K.67, R.74, L.76, D.112, V.113, G.114, D.115, A.116, F.117, M.153, G.154, F.162, M.186, D.187, K.222 Chain C: C.5, G.6, C.38 Ligands: MG.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.117, A:F.117 Hydrogen bonds: A:D.112, A:D.115, A:A.116, A:F.117, A:G.154 Salt bridges: A:K.67, A:K.67, A:K.67, A:K.72, A:R.74, A:R.74, A:K.222

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: L.94, G.95, V.383 Chain B: Q.39, W.40, P.41, P.149, N.153 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.39, B:N.153 GOL.4: 9 residues within 4Å: Chain A: K.368, T.371, Y.407, Q.409, A.410, T.411 Chain B: I.409, Q.410, T.413 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.409, A:T.411, B:Q.410 Water bridges: A:V.367, A:T.411 GOL.5: 5 residues within 4Å: Chain A: N.267, W.268, Q.271 Chain C: C.10, G.35 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.267 Water bridges: A:K.352

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

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

HIV-1 reverse transcriptase p66 subunit

HIV-1 RT p51 subunit

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