SMTL ID : 6x49.1

Crystal Structure of HIV-1 Reverse Transcriptase (Y181C) Variant in Complex with 7-(2-(2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy)phenoxy)-2-naphthonitrile (JLJ649), a Non-nucleoside Inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

hetero-1-1-mer

Ligands

1 x 7AX: 7-(2-(2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy)phenoxy)-2-naphthonitrile(Non-covalent)

7AX.1: 19 residues within 4Å: Chain A: P.97, L.102, K.103, K.104, K.105, V.108, V.181, C.183, Q.184, Y.185, Y.190, G.192, F.229, W.231, L.236, H.237, P.238, Y.320 Chain B: E.138 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.102, A:K.105, A:V.181, A:V.181, A:Y.190, A:Y.190, A:L.236 Hydrogen bonds: A:K.105, A:P.238 pi-Stacking: A:Y.190, A:W.231

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

SO4.2: 4 residues within 4Å: Chain A: K.333, G.335, Q.336, K.514 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.336 Salt bridges: A:K.333, A:K.514

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Duong, V.N. et al., Structural investigation of 2-naphthyl phenyl ether inhibitors bound to WT and Y181C reverse transcriptase highlights key features of the NNRTI binding site. Protein Sci. (2020)

Release Date

2020-07-22

Peptides

Reverse transcriptase/ribonuclease H: A
p51 RT: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Reverse transcriptase/ribonuclease H

p51 RT

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