AT6

 CAS No.: 2098836-50-9  Cat No.: BP-400050 4.5  

AT6 is a BRD4-targeting PROTAC related to the selective degrader AT 1 and described publicly as an analog bearing altered thioether linker features. The target-binding element is based on a BRD4/BET bromodomain ligand, while the E3-recruiting element derives from a VHL ligand, allowing the molecule to connect BRD4 to VHL-associated ubiquitination machinery. In PROTAC design, AT6 is useful for examining how linker length and composition affect BRD4 degradation relative to the parent AT 1 scaffold. Its mechanism is expected to involve BRD4 bromodomain engagement, VHL recruitment, ternary-complex formation, ubiquitination, and proteasome-mediated degradation. AT6 is valuable for BRD4 chemical biology, epigenetic reader degradation, linker structure–activity studies, bromodomain selectivity profiling, and comparison of BET inhibitor occupancy with degrader-driven suppression of BRD4-dependent transcription.

AT6

Structure of 2098836-50-9

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PROTAC
Molecular Formula
C48H58ClN9O7S3
Molecular Weight
1004.68

* For research and manufacturing use only. Not for human or clinical use.

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Popular Publications Citing BOC Sciences Products
Solubility
Soluble in DMSO
Storage
Please store the product under the recommended conditions in the Certificate of Analysis.
Shipping
Room temperature in continental US; may vary elsewhere
IUPACName
(2S,4R)-1-[(2R)-2-acetamido-3-[2-[2-[2-[[2-[(9S)-7-(4-chlorophenyl)-4,5,13-trimethyl-3-thia-1,8,11,12-tetrazatricyclo[8.3.0.0^2,6]trideca-2(6),4,7,10,12-pentaen-9-yl]acetyl]amino]ethoxy]ethoxy]ethylsulfanyl]-3-methylbutanoyl]-4-hydroxy-N-[[4-(4-methyl-1,3-thiazol-5-yl)phenyl]methyl]pyrrolidine-2-carboxamide
Synonyms
AT 6; AT-6; (2S,4R)-1-((R)-14-acetamido-1-((S)-4-(4-chlorophenyl)-2,3,9-trimethyl-6H-thieno[3,2-f][1,2,4]triazolo[4,3-a][1,4]diazepin-6-yl)-13,13-dimethyl-2-oxo-6,9-dioxa-12-thia-3-azapentadecan-15-oyl)-4-hydroxy-N-(4-(4-methylthiazol-5-yl)benzyl)pyrrolidine-2-carboxamide
Density
1.41±0.1 g/cm3
InChI Key
ZCEIHPCVOJGWHG-TZPPCSJFSA-N
InChI
InChI=1S/C48H58ClN9O7S3/c1-27-29(3)68-47-40(27)41(33-12-14-35(49)15-13-33)54-37(44-56-55-30(4)58(44)47)23-39(61)50-16-17-64-18-19-65-20-21-67-48(6,7)43(53-31(5)59)46(63)57-25-36(60)22-38(57)45(62)51-24-32-8-10-34(11-9-32)42-28(2)52-26-66-42/h8-15,26,36-38,43,60H,16-25H2,1-7H3,(H,50,61)(H,51,62)(H,53,59)/t36-,37+,38+,43-/m1/s1
SMILES
O=C(NC(C(=O)N1CC(O)CC1C(=O)NCC=2C=CC(=CC2)C=3SC=NC3C)C(SCCOCCOCCNC(=O)CC4N=C(C=5C=CC(Cl)=CC5)C6=C(SC(=C6C)C)N7C(=NN=C74)C)(C)C)C
Mechanism

Target: AT6 selectively targets BRD4 as an analog of the AT 1 degrader.

Binding site: Its BRD4 ligand binds the bromodomain acetyl-lysine recognition pocket.

Mechanism of action: AT6 is an analog of the BRD4 degrader AT 1, retaining a bifunctional architecture that connects a BRD4-binding ligand to a VHL-recruiting ligand. This design promotes induced proximity between BRD4 and the VHL E3 ligase complex, enabling ubiquitination and proteasome-mediated depletion of BRD4 protein. As a structurally related probe, AT6 can support comparative studies of linker composition, ternary-complex geometry, and BRD4 degradation selectivity. It is useful for evaluating how changes around an established BRD4 PROTAC scaffold affect degradation efficiency and BET-family selectivity.

Applications

• PROTAC-Mediated Kinase Degradation: AT6 is utilized to explore selective degradation of kinases, offering insights into kinase-related signaling pathways. By targeting specific kinases for degradation, researchers can dissect complex cellular processes and identify novel therapeutic targets.

• Targeted Protein Degradation in Oncology: AT6 facilitates the study of oncogenic protein degradation, aiding in the investigation of cancer cell survival mechanisms. This approach enables the elucidation of protein roles in tumorigenesis, potentially leading to the discovery of new anti-cancer strategies.

• Drug Resistance Mechanism Studies: Utilizing AT6 in research allows for the examination of drug resistance mechanisms through targeted degradation of resistance-conferring proteins. This application is crucial for developing strategies to overcome resistance in various disease models.

• PROTAC-Based Tool Development: AT6 serves as a valuable tool in the development of next-generation PROTACs, providing a model for optimizing degradation efficiency and selectivity. Researchers can leverage this product to enhance the design of more effective protein degraders.

1. Structural basis of PROTAC cooperative recognition for selective protein degradation.
Gadd, M.S., Testa, A., Lucas, X., Chan, K.H., Chen, W., Lamont, D.J., Zengerle, M. and Ciulli, A., 2017. Nature chemical biology, 13(5), pp.514-521.
Inducing macromolecular interactions with small molecules to activate cellular signaling is a challenging goal. PROTACs (proteolysis-targeting chimeras) are bifunctional molecules that recruit a target protein in proximity to an E3 ubiquitin ligase to trigger protein degradation. Structural elucidation of the key ternary ligase-PROTAC-target species and its impact on target degradation selectivity remain elusive. We solved the crystal structure of Brd4 degrader MZ1 in complex with human VHL and the Brd4 bromodomain (Brd4BD2). The ligand folds into itself to allow formation of specific intermolecular interactions in the ternary complex. Isothermal titration calorimetry studies, supported by surface mutagenesis and proximity assays, are consistent with pronounced cooperative formation of ternary complexes with Brd4BD2. Structure-based-designed compound AT1 exhibits highly selective depletion of Brd4 in cells. Our results elucidate how PROTAC-induced de novo contacts dictate preferential recruitment of a target protein into a stable and cooperative complex with an E3 ligase for selective degradation.

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Tip: Chemical formula is case sensitive. C22H30N4O c22h30n40
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