PDBsum entry 5dlz

Transcription

PDB id: 5dlz

Contents

Protein chain

127 a.a.

Ligands

5D1

Waters ×37

PDB id:

5dlz

Name:

Transcription

Title:

First domain of human bromodomain brd4 in complex with inhibitor 4- [(1-methyl-2-oxo-1,2-dihydroquinolin-4-yl)oxy]-n-({1-[(3-methylphe methyl]piperidin-4-yl}methyl)butanamide

Structure:

Bromodomain-containing protein 4. Chain: a. Fragment: n-terminal bromodomain, residues 42-168. Synonym: protein hunk1. Engineered: yes

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: brd4, hunk1. Expressed in: escherichia coli. Expression_system_taxid: 511693. Expression_system_variant: star.

Resolution:

1.70Å R-factor: 0.255 R-free: 0.334

Authors:

B.Raux,E.Rebuffet,S.Betzi,X.Morelli

Key ref:

S.Milhas et al. (2016). Protein-Protein Interaction Inhibition (2P2I)-Oriented Chemical Library Accelerates Hit Discovery. Acs Chem Biol, 11, 2140-2148. PubMed id: 27219844 DOI: 10.1021/acschembio.6b00286

Date:

07-Sep-15 Release date: 01-Jun-16

Protein chain

O60885  (BRD4_HUMAN) -  Bromodomain-containing protein 4 from Homo sapiens

Seq: 1362 a.a.

Struc: 127 a.a.*

* PDB and UniProt seqs differ at 1 residue position (black cross)

Enzyme reactions

• Enzyme class: E.C.?

DOI no: 10.1021/acschembio.6b00286

Acs Chem Biol 11:2140-2148 (2016)

PubMed id: 27219844

Protein-Protein Interaction Inhibition (2P2I)-Oriented Chemical Library Accelerates Hit Discovery.

S.Milhas, B.Raux, S.Betzi, C.Derviaux, P.Roche, A.Restouin, M.J.Basse, E.Rebuffet, A.Lugari, M.Badol, R.Kashyap, J.C.Lissitzky, C.Eydoux, V.Hamon, M.E.Gourdel, S.Combes, P.Zimmermann, M.Aurrand-Lions, T.Roux, C.Rogers, S.Müller, S.Knapp, E.Trinquet, Y.Collette, J.C.Guillemot, X.Morelli.

ABSTRACT

Protein-protein interactions (PPIs) represent an enormous source of opportunity for therapeutic intervention. We and others have recently pinpointed key rules that will help in identifying the next generation of innovative drugs to tackle this challenging class of targets within the next decade. We used these rules to design an oriented chemical library corresponding to a set of diverse "PPI-like" modulators with cores identified as privileged structures in therapeutics. In this work, we purchased the resulting 1664 structurally diverse compounds and evaluated them on a series of representative protein-protein interfaces with distinct "druggability" potential using homogeneous time-resolved fluorescence (HTRF) technology. For certain PPI classes, analysis of the hit rates revealed up to 100 enrichment factors compared with nonoriented chemical libraries. This observation correlates with the predicted "druggability" of the targets. A specific focus on selectivity profiles, the three-dimensional (3D) molecular modes of action resolved by X-ray crystallography, and the biological activities of identified hits targeting the well-defined "druggable" bromodomains of the bromo and extraterminal (BET) family are presented as a proof-of-concept. Overall, our present study illustrates the potency of machine learning-based oriented chemical libraries to accelerate the identification of hits targeting PPIs. A generalization of this method to a larger set of compounds will accelerate the discovery of original and potent probes for this challenging class of targets.