Controlled cyclization of peptoids to form chiral diketopiperazines
Abstract
The present disclosure provides improved methods for controlled cyclization of peptoid dimers to form N,N′-2,5-diketopiperazines (N,N′-2,5-DKPs) with significant selectivity. In at least some examples, selectivity is based on a serendipitous conglomeration of slow exchange of amide rotamers, steric repulsion from the degree of α-substitution, and the geometric bulk of an amine nucleophile. By varying reaction conditions, the selectivity of the reaction and formation of a particular N,N′-2,5-DKP can be switched. The cyclization works in the presence of a variety of protection groups and diverse functionalities. The teachings herein provide techniques for synthesizing N,N′-2,5-DKPs that can be readily docked with drug candidates for shuttling across the blood brain barrier. This method provides a facile way to produce substituted DKPs containing groups ready for post-modification to include docking drug candidates.
- Inventors:
- Issue Date:
- Research Org.:
- Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)
- Sponsoring Org.:
- USDOE National Nuclear Security Administration (NNSA)
- OSTI Identifier:
- 1840327
- Patent Number(s):
- 11084794
- Application Number:
- 16/668,444
- Assignee:
- Triad National Security, LLC (Los Alamos, NM)
- Patent Classifications (CPCs):
-
C - CHEMISTRY C07 - ORGANIC CHEMISTRY C07D - HETEROCYCLIC COMPOUNDS
- DOE Contract Number:
- 89233218CNA000001
- Resource Type:
- Patent
- Resource Relation:
- Patent File Date: 10/30/2019
- Country of Publication:
- United States
- Language:
- English
Citation Formats
Williams, Robert F., Peterson, Paul William, Gilbertson, Robert David, Schmidt, Jurgen G., and Strauss, Charlie E. Controlled cyclization of peptoids to form chiral diketopiperazines. United States: N. p., 2021.
Web.
Williams, Robert F., Peterson, Paul William, Gilbertson, Robert David, Schmidt, Jurgen G., & Strauss, Charlie E. Controlled cyclization of peptoids to form chiral diketopiperazines. United States.
Williams, Robert F., Peterson, Paul William, Gilbertson, Robert David, Schmidt, Jurgen G., and Strauss, Charlie E. Tue .
"Controlled cyclization of peptoids to form chiral diketopiperazines". United States. https://www.osti.gov/servlets/purl/1840327.
@article{osti_1840327,
title = {Controlled cyclization of peptoids to form chiral diketopiperazines},
author = {Williams, Robert F. and Peterson, Paul William and Gilbertson, Robert David and Schmidt, Jurgen G. and Strauss, Charlie E.},
abstractNote = {The present disclosure provides improved methods for controlled cyclization of peptoid dimers to form N,N′-2,5-diketopiperazines (N,N′-2,5-DKPs) with significant selectivity. In at least some examples, selectivity is based on a serendipitous conglomeration of slow exchange of amide rotamers, steric repulsion from the degree of α-substitution, and the geometric bulk of an amine nucleophile. By varying reaction conditions, the selectivity of the reaction and formation of a particular N,N′-2,5-DKP can be switched. The cyclization works in the presence of a variety of protection groups and diverse functionalities. The teachings herein provide techniques for synthesizing N,N′-2,5-DKPs that can be readily docked with drug candidates for shuttling across the blood brain barrier. This method provides a facile way to produce substituted DKPs containing groups ready for post-modification to include docking drug candidates.},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {2021},
month = {8}
}
Works referenced in this record:
Cis/Trans Isomerization in Secondary Amides: Reaction Paths, Nitrogen Inversion, and Relevance to Peptidic Systems
journal, August 2017
- Thakkar, Balmukund S.; Svendsen, John-Sigurd M.; Engh, Richard A.
- The Journal of Physical Chemistry A, Vol. 121, Issue 36
Characterization of secondary amide peptide bonds isomerization: Thermodynamics and kinetics from 2D NMR spectroscopy
journal, January 2011
- Zhang, Jin; Germann, Markus W.
- Biopolymers
A study of diketopiperazines as electron-donor initiators in transition metal-free haloarene–arene coupling
journal, January 2017
- Cumine, Florimond; Zhou, Shengze; Tuttle, Tell
- Organic & Biomolecular Chemistry, Vol. 15, Issue 15
Diastereoselective alkylation of (3S)- and (3R)-3-methylpiperazine-2,5-dione derivatives. A convenient approach to both (S)- and (R)-alanine
journal, November 1992
- Orena, Mario; Porzi, Gianni; Sandri, Sergio
- The Journal of Organic Chemistry, Vol. 57, Issue 24
Structural and Dynamical Characteristics of Peptoid Oligomers with Achiral Aliphatic Side Chains Studied by Molecular Dynamics Simulation
journal, September 2011
- Park, Sung Hyun; Szleifer, Igal
- The Journal of Physical Chemistry B, Vol. 115, Issue 37
Kinetics and Equilibria of Cis/Trans Isomerization of Secondary Amide Peptide Bonds in Linear and Cyclic Peptides
journal, February 2010
- Nguyen, Khanh; Iskandar, Margret; Rabenstein, Dallas L.
- The Journal of Physical Chemistry B, Vol. 114, Issue 9
Jumping Hurdles: Peptides Able To Overcome Biological Barriers
journal, July 2017
- Sánchez-Navarro, Macarena; Teixidó, Meritxell; Giralt, Ernest
- Accounts of Chemical Research, Vol. 50, Issue 8
New diketopiperazines as vectors for peptide protection and brain delivery: Synthesis and biological evaluation
journal, September 2016
- Virgone-Carlotta, A.; Dufour, E.; Bacot, S.
- Journal of Labelled Compounds and Radiopharmaceuticals, Vol. 59, Issue 12
Collective Synthesis and Biological Evaluation of Tryptophan-Based Dimeric Diketopiperazine Alkaloids
journal, November 2015
- Tadano, Shinji; Sugimachi, Yukihiro; Sumimoto, Michinori
- Chemistry - A European Journal, Vol. 22, Issue 4
Microwave-Assisted Stereoselective One-Pot Synthesis of Symmetrical and Unsymmetrical 2,5-Diketopiperazines from Unprotected Amino Acids
journal, November 2008
- Jainta, Manuel; Nieger, Martin; Bräse, Stefan
- European Journal of Organic Chemistry, Vol. 2008, Issue 32
Synthesis of 1,4‐Diaryl‐piperazine‐2,5‐diones: New Behavior of N,N‐Dimethylformamide Dimethyl Acetal (DMFDMA)
journal, January 2008
- Abu‐Shanab, Fathi A.; Al‐Harrasi, Ahmed; Mousa, Sayed A. S.
- Synthetic Communications, Vol. 38, Issue 3
Studies towards the synthesis of bicyclomycin precursors: Synthesis ofN,N′-disubstituted 2,5-diketopiperazines in solution and on solid phase
journal, May 2008
- Fryszkowska, Anna; Ostaszewski, Ryszard
- Journal of Heterocyclic Chemistry, Vol. 45, Issue 3
Synthesis of a novel category of Ugi adducts using succinic acid, succinic anhydride and maleic anhydride and their application in post-Ugi reactions for synthesis of functionalized piperazine 2,5-diones
journal, September 2017
- Ziyaei Halimehjani, Azim; Sharifi, Marzieh
- Tetrahedron, Vol. 73, Issue 39
Spin-labelled diketopiperazines and peptide–peptoid chimera by Ugi-multi-component-reactions
journal, January 2016
- Sultani, Haider N.; Haeri, Haleh H.; Hinderberger, Dariush
- Organic & Biomolecular Chemistry, Vol. 14, Issue 48
Total synthesis and biological evaluation of spirotryprostatin A analogs
journal, September 2017
- Ma, Yangmin; Fan, Chao; Jia, Bin
- Chirality, Vol. 29, Issue 11
cis and trans Configurations of the Peptide Bond in N-Monosubstituted Amides by Nuclear Magnetic Resonance
journal, February 1964
- LaPlanche, Laurine A.; Rogers, Max T.
- Journal of the American Chemical Society, Vol. 86, Issue 3
Cis – Trans Amide Bond Rotamers in β-Peptoids and Peptoids: Evaluation of Stereoelectronic Effects in Backbone and Side Chains
journal, February 2013
- Laursen, Jonas S.; Engel-Andreasen, Jens; Fristrup, Peter
- Journal of the American Chemical Society, Vol. 135, Issue 7
Multiple-Component Condensation Strategies for Combinatorial Library Synthesis
journal, January 1996
- Armstrong, Robert W.; Combs, Andrew P.; Tempest, Paul A.
- Accounts of Chemical Research, Vol. 29, Issue 3
α- and α′-Lithiation–Electrophile Trapping of N-Thiopivaloyl and N-tert-Butoxythiocarbonyl α-Substituted Azetidines: Rationalization of the Regiodivergence Using NMR and Computation
journal, September 2015
- Jackson, Kelvin E.; Mortimer, Claire L.; Odell, Barbara
- The Journal of Organic Chemistry, Vol. 80, Issue 20
Rapid synthesis of diketopiperazine macroarrays via Ugi four-component reactions on planar solid supports
journal, January 2006
- Lin, Qi; Blackwell, Helen E.
- Chemical Communications, Issue 27
“Multi-component Reactions : Emerging Chemistry in Drug Discovery” ‘From Xylocain to Crixivan’
journal, January 2003
- Hulme, Christopher; Gore, Vijay
- Current Medicinal Chemistry, Vol. 10, Issue 1
Short and Novel Stereospecific Synthesis of Trisubstituted 2,5-Diketopiperazines
journal, May 2005
- Sollis, Steven L.
- The Journal of Organic Chemistry, Vol. 70, Issue 12
Total Synthesis of Theonellapeptolide Id
journal, February 2017
- Kuranaga, Takefumi; Enomoto, Ayumu; Tan, Hui
- Organic Letters, Vol. 19, Issue 6
Method for Preparation of Piperazindione Derivatives
patent-application, June 2011
- Zierke, Thomas; Hupe, Eike; Rack, Michael
- US Patent Application 13/058677; 20110144336
Acetic acid-catalyzed diketopiperazine synthesis.
journal, January 1981
- Suzuki, Kenji; Sasaki, Yusuke; Endo, Nobuyoshi
- Chemical and Pharmaceutical Bulletin, Vol. 29, Issue 1
Synthesis of monoalkylidene diketopiperazines and application to the synthesis of barettin
journal, January 2017
- Kelley, Elizabeth W.; Norman, Skylar G.; Scheerer, Jonathan R.
- Org. Biomol. Chem., Vol. 15, Issue 40
Automation of the CHARMM General Force Field (CGenFF) II: Assignment of Bonded Parameters and Partial Atomic Charges
journal, November 2012
- Vanommeslaeghe, K.; Raman, E. Prabhu; MacKerell, A. D.
- Journal of Chemical Information and Modeling, Vol. 52, Issue 12
Practical synthesis of Schöllkopf's bis-lactim ether chiral auxiliary: (3S)-3,6-dihydro-2,5-dimethoxy-3-isopropyl-pyrazine
journal, January 1998
- Bull, Steven D.; Davies, Stephen G.; Moss, William O.
- Tetrahedron: Asymmetry, Vol. 9, Issue 2
Chemical Modulation of Peptoids: Synthesis and Conformational Studies on Partially Constrained Derivatives
journal, May 2011
- Moure, Alejandra; Sanclimens, Glòria; Bujons, Jordi
- Chemistry – A European Journal, Vol. 17, Issue 28
Asymmetric Synthesis of 3,4,6-Trisubstituted 2,5-Diketopiperazines by Using Dynamic Kinetic Resolution of α-Bromo Tertiary Acetamides
journal, March 2014
- Baek, Jinho; Kang, Seock Yong; Im, Chan
- European Journal of Organic Chemistry, Vol. 2014, Issue 13
Peptide bonds revisited
journal, August 1998
- Weiss, Manfred S.; Jabs, Andreas; Hilgenfeld, Rolf
- Nature Structural & Molecular Biology, Vol. 5, Issue 8
Blood–brain barrier peptide shuttles
journal, June 2017
- Sánchez-Navarro, Macarena; Giralt, Ernest; Teixidó, Meritxell
- Current Opinion in Chemical Biology, Vol. 38
Local and Tunable n→π* Interactions Regulate Amide Isomerism in the Peptoid Backbone
journal, July 2007
- Gorske, Benjamin C.; Bastian, Brent L.; Geske, Grant D.
- Journal of the American Chemical Society, Vol. 129, Issue 29
2,5-Diketopiperazines: Synthesis, Reactions, Medicinal Chemistry, and Bioactive Natural Products
journal, April 2012
- Borthwick, Alan D.
- Chemical Reviews, Vol. 112, Issue 7
Synthesis of Functionalized, Unsymmetrical 1,3,4,6-Tetrasubstituted 2,5-Diketopiperazines
journal, December 2006
- Tullberg, Marcus; Grøtli, Morten; Luthman, Kristina
- The Journal of Organic Chemistry, Vol. 72, Issue 1
Efficient synthesis of 2,5-diketopiperazines using microwave assisted heating
journal, July 2006
- Tullberg, Marcus; Grøtli, Morten; Luthman, Kristina
- Tetrahedron, Vol. 62, Issue 31
Barriers to Rotation of Secondary Amide Peptide Bonds
journal, May 1998
- Scherer, Gerd; Kramer, Michael L.; Schutkowski, Mike
- Journal of the American Chemical Society, Vol. 120, Issue 22
Design, synthesis and biological evaluation of soluble 2,5-diketopiperazines derivatives as potential antifouling agents
journal, January 2015
- Liao, Shengrong; Xu, Ying; Tang, Yong
- RSC Advances, Vol. 5, Issue 63
Enantioselective Total Synthesis of (−)-Acetylaranotin, a Dihydrooxepine Epidithiodiketopiperazine
journal, October 2011
- Codelli, Julian A.; Puchlopek, Angela L. A.; Reisman, Sarah E.
- Journal of the American Chemical Society, Vol. 134, Issue 4
Simple route to sterically pure diketopiperazines
journal, February 1968
- Nitecki, Danute E.; Halpern, Berthold; Westley, John W.
- The Journal of Organic Chemistry, Vol. 33, Issue 2
Studies of Unusual Amino Acids and Their Peptides. XII. The Chemistry ofN-(Carboxymethyl)amino Acids. I. The Preparation, Properties, and Characterization ofN-(Carboxymethyl)amino Acids and Their Esters
journal, September 1980
- Miyazawa, Toshifumi
- Bulletin of the Chemical Society of Japan, Vol. 53, Issue 9
Solid-phase synthesis of peptoid-like oligomers containing diverse diketopiperazine units
journal, January 2014
- Suwal, Sujit; Kodadek, Thomas
- Org. Biomol. Chem., Vol. 12, Issue 31
Convenient asymmetric synthesis of 1,3,4,6-tetrasubstituted 2,5-diketopiperazines
journal, May 2016
- Lee, Myung-su; Baek, Jinho; Youk, Eunjee
- Arkivoc, Vol. 2016, Issue 4
Automation of the CHARMM General Force Field (CGenFF) I: Bond Perception and Atom Typing
journal, November 2012
- Vanommeslaeghe, K.; MacKerell, A. D.
- Journal of Chemical Information and Modeling, Vol. 52, Issue 12
Organo-Cation Catalyzed Asymmetric Homo/Heterodialkylation of Bisoxindoles: Construction of Vicinal All-Carbon Quaternary Stereocenters and Total Synthesis of (−)-Chimonanthidine
journal, August 2018
- Chen, Si-Kai; Ma, Wen-Qiang; Yan, Zhi-Bo
- Journal of the American Chemical Society, Vol. 140, Issue 32
Non-proline Cis peptide bonds in proteins
journal, February 1999
- Jabs, Andreas; Weiss, Manfred S.; Hilgenfeld, Rolf
- Journal of Molecular Biology, Vol. 286, Issue 1
Design, synthesis and cytotoxic activities of novel 2,5-diketopiperazine derivatives
journal, October 2016
- Liao, Sheng-Rong; Qin, Xiao-Chu; Wang, Zhen
- European Journal of Medicinal Chemistry, Vol. 121
A Rotamer Library to Enable Modeling and Design of Peptoid Foldamers
journal, June 2014
- Renfrew, P. Douglas; Craven, Timothy W.; Butterfoss, Glenn L.
- Journal of the American Chemical Society, Vol. 136, Issue 24
Theoretical Studies on cis-Amide Preference in N-Methylanilides
journal, July 1995
- Saito, Shoichi; Toriumi, Yoshiharu; Tomioka, Nobuo
- The Journal of Organic Chemistry, Vol. 60, Issue 15
Occurrence and role ofcis peptide bonds in protein structures
journal, July 1990
- Stewart, David E.; Sarkar, Atom; Wampler, John E.
- Journal of Molecular Biology, Vol. 214, Issue 1
Stereoselective syntheses using carbohydrates as chiral auxiliaries
journal, January 1995
- Kunz, H.
- Pure and Applied Chemistry, Vol. 67, Issue 10
Diketopiperazines as a Tool for the Study of Transport across the Blood−Brain Barrier (BBB) and Their Potential Use as BBB-Shuttles
journal, September 2007
- Teixidó, Meritxell; Zurita, Esther; Malakoutikhah, Morteza
- Journal of the American Chemical Society, Vol. 129, Issue 38
Blood–brain barrier shuttle peptides: an emerging paradigm for brain delivery
journal, January 2016
- Oller-Salvia, Benjamí; Sánchez-Navarro, Macarena; Giralt, Ernest
- Chemical Society Reviews, Vol. 45, Issue 17