SMTL ID : 2ykm.1

Crystal structure of HIV-1 Reverse Transcriptase (RT) in complex with a Difluoromethylbenzoxazole (DFMB) Pyrimidine Thioether derivative, a non-nucleoside RT inhibitor (NNRTI)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-1-1-mer

Ligands

1 x YKN: 2-[DIFLUORO-[(4-METHYL-PYRIMIDINYL)-THIO]METHYL]-BENZOXAZOLE(Non-covalent)

YKN.1: 15 residues within 4Å: Chain A: P.95, L.100, K.101, K.103, V.106, V.179, Y.181, Y.188, V.189, G.190, W.229, L.234, H.235, P.236, Y.318 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:P.95, A:L.100, A:V.106, A:Y.188, A:L.234, A:L.234, A:Y.318 pi-Stacking: A:Y.181, A:W.229, A:W.229

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.443, G.444, Q.478, D.498 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.443, A:D.498

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boyer, J. et al., Difluoromethylbenzoxazole Pyrimidine Thioether Derivatives: A Novel Class of Potent Non-Nucleoside HIV-1 Reverse Transcriptase Inhibitors. J.Med.Chem. (2011)

Release Date

2011-08-17

Peptides

REVERSE TRANSCRIPTASE/RIBONUCLEASE H: A
REVERSE TRANSCRIPTASE/RIBONUCLEASE H: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

REVERSE TRANSCRIPTASE/RIBONUCLEASE H

REVERSE TRANSCRIPTASE/RIBONUCLEASE H

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