ISDA: 3NBP

Deposition Date 2010-06-03

Release Date 2010-08-18

Last Version Date 2024-02-21

Entry Detail

PDB ID:

3NBP

Keywords:

TRANSFERASE

Title:

HIV-1 reverse transcriptase with aminopyrimidine inhibitor 2

Biological Source:

Source Organism:

Human immunodeficiency virus type 1 group M subtype B (Taxon ID: 11706)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.95 Å

R-Value Free:

0.24

R-Value Work:

0.19

R-Value Observed:

0.19

Space Group:

C 2 2 21

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Reverse transcriptase/ribonuclease H
Gene (Uniprot):gag-pol
Chain IDs:A
Chain Length:561
Number of Molecules:1
Biological Source:Human immunodeficiency virus type 1 group M subtype B

UniProt ID:P04585 Pfam ID:PF00078, PF06817, PF06815, PF00075

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:p51 RT
Gene (Uniprot):gag-pol
Chain IDs:B
Chain Length:440
Number of Molecules:1
Biological Source:Human immunodeficiency virus type 1 group M subtype B

UniProt ID:P04585 Pfam ID:PF00078, PF06817, PF06815, PF00075

Ligand Molecules

JGZ

Primary Citation

Discovery of piperidin-4-yl-aminopyrimidines as HIV-1 reverse transcriptase inhibitors. N-benzyl derivatives with broad potency against resistant mutant viruses.

Kertesz, D.J, Brotherton-Pleiss, C, Yang, M, Wang, Z, Lin, X, Qiu, Z, Hirschfeld, D.R, Gleason, S, Mirzadegan, T, Dunten, P.W, Harris, S.F, Villasenor, A.G, Hang, J.Q, Heilek, G.M, Klumpp, K.Show

Bioorg.Med.Chem.Lett. 20 4215 4218 (2010)

PMID: 20538456 DOI: 10.1016/j.bmcl.2010.05.040

Abstact

An analysis of the binding motifs of known HIV-1 non-nucleoside reverse transcriptase inhibitors has led to discovery of novel piperidine-linked aminopyrimidine derivatives with broad activity against wild-type as well as drug-resistant mutant viruses. Notably, the series retains potency against the K103N/Y181C and Y188L mutants, among others. Thus, the N-benzyl compound 5k has a particularly attractive profile. Synthesis and SAR are presented and discussed, as well as crystal structures relating to the binding motifs.

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