Federico Bernal, Ph.D.
Federico  Bernal, Ph.D.
Investigator

The Bernal Group has pioneered the use of hydrocarbon stapled alpha-helical peptides to study protein-protein and protein-DNA interactions. This powerful methodology has resulted in the development of compounds to regulate cancer pathogenesis pathways, including the p53 network and the linear chain ubiquitin assembly complex (LUBAC). Further work in this arena has led to the development of inhibitors of cell motility and metastasis as well as compounds that regulate the virulence and pathogenicity of proteobacteria.

Areas of Expertise
1) drug design, 2) organic synthesis, 3) protein-protein interactions, 4) alpha-helices, 5) oncogenic signaling, 6) transcription factor targeting

Contact Info

Federico Bernal, Ph.D.
Center for Cancer Research
National Cancer Institute
Building 560, Room 22-96B
Frederick, MD 21702
301-846-6723
bernalf@mail.nih.gov

The development of cancer therapeutics has evolved significantly over the course of the last two decades with significant efforts geared towards the identification of treatments that selectively target a specific signaling pathway while bearing minimal off-target effects. Protein-protein interactions ultimately govern the vast majority of cellular functions, and an understanding of the molecular interactions occurring within multiprotein complexes is critical for the design and production of inhibitors targeting a specific pathway. The assembly of protein complexes relies heavily on a pre-determined three-dimensional arrangement of atoms; and, in many instances, the interactions take place across extended surfaces devoid of binding pockets, making them inaccessible to small molecules.

Our lab makes use of stapled peptides to target interactions mediated by alpha-helical interfaces. Stapled peptides are hydrocarbon-constrained alpha helices which have emerged as a class of molecular probes and therapeutices capable of targeting molecular pathways with a high degree of selectivity both in vitro and in vivo. Given their ease of synthesis and their drug-like properties, our group has focused on targeting signaling systems ranging from protein-protein interactions relevant in cancer including the p53-HDM2-HDMX axis, and the linear ubiquitin assembly chain complex (LUBAC). More recently we have shifted our focus to develop compounds that target protein-DNA interaction, and this foray has led us to the study of transcription factor interactions in bacterial and eukaryotic systems. We have embarked on a study of the bacterial transcription factor sigma-54, which is responsible for the pathogenicity of several disease-causing bacteria, and we are currently testing compounds that target the interaction between sigma-54 and its promoters. On the eukaryotic side, we have created compounds aimed towards the disruption of the protein-DNA interactions mediated by the myc oncogene.

Scientific Focus Areas:
Cancer Biology, Chemical Biology, Microbiology and Infectious Diseases, Molecular Pharmacology
Selected Recent Publications
  1. Yang Y, Schmitz R, Mitala JJ, Whiting A, Xiao W, Ceribelli M, Wright GW, Zhao H, Yang Y, Xu W, Rosenwald A, Ott G, Gascoyne RD, Connors JM, Rimsza LM, Campo E, Jaffe ES, Delabie J, Smeland EB, Braziel RM, Tubbs RR, Cook JR, Weisenburger DD, Chan WC, Wiestner A, Kruhlak MJ, Iwai K, Bernal F, Staudt LM.
    Cancer Discov. 4: 480-93, 2014. [ Journal Article ]
  2. de Lange J, Teunisse AF, Vries MV, Lodder K, Lam S, Luyten GP, Bernal F, Jager MJ, Jochemsen AG.
    Am J Cancer Res. 2: 492-507, 2012. [ Journal Article ]
  3. Gembarska A, Luciani F, Fedele C, Russell EA, Dewaele M, Villar S, Zwolinska A, Haupt S, de Lange J, Yip D, Goydos J, Haigh JJ, Haupt Y, Larue L, Jochemsen A, Shi H, Moriceau G, Lo RS, Ghanem G, Shackleton M, Bernal F, Marine J.
    Nat Med. 18: 1239-1247, 2012. [ Journal Article ]
  4. Bernal F, Wade M, Godes M, Davis TN, Whitehead DG, Kung AL, Wahl GM, Walensky LD.
    Cancer Cell. 18: 411-422, 2010. [ Journal Article ]
  5. Pitter K, Bernal F, Labelle J, Walensky LD.
    Methods Enzymol. 446: 387-408, 2008. [ Journal Article ]

Dr. Bernal did his undergraduate training at the Massachusetts Institute of Technology graduating in 1997 with degrees in chemistry and chemical engineering. He obtained his Ph.D. from The Scripps Research Institute in 2002 after performing work on the development of synthetic methodologies for the construction of complex marine natural products in the laboratory of K. C. Nicolaou. Dr. Bernal then returned to Cambridge, MA to undergo postdoctoral training in chemical biology at Harvard University in the group of Gregory L. Verdine. He then continued his foray into cancer chemical biology in the laboratory of Loren D. Walensky at the Dana-Farber Cancer Institute. He established his laboratory in the Metabolism Branch (now the Lymphoid Malignancies Branch) of the Center for Cancer Research at NCI in 2010. His research focus involves the investigation and manipulation of cancer pathogenesis pathways with synthetic molecules.

Position Number of Positions Contact E-mail Contact Name Contact Phone
Postdoctoral Fellow in Cancer Biology 1

bernalf@mail.nih.gov

Federico Bernal 301-846-6723
Postdoctoral Fellow in Chemical Biology 1

bernalf@mail.nih.gov

Federico Bernal 301-846-6723
Name Position
Sterling Payne Postbaccalaureate Fellow
Blaze Pharoah Postbaccalaureate Fellow (CRTA)
Ashley Pitt Student Intern (UGSP Scholar)
Amanda Whiting Ph.D. Postdoctoral Fellow (Visiting)

Research

The development of cancer therapeutics has evolved significantly over the course of the last two decades with significant efforts geared towards the identification of treatments that selectively target a specific signaling pathway while bearing minimal off-target effects. Protein-protein interactions ultimately govern the vast majority of cellular functions, and an understanding of the molecular interactions occurring within multiprotein complexes is critical for the design and production of inhibitors targeting a specific pathway. The assembly of protein complexes relies heavily on a pre-determined three-dimensional arrangement of atoms; and, in many instances, the interactions take place across extended surfaces devoid of binding pockets, making them inaccessible to small molecules.

Our lab makes use of stapled peptides to target interactions mediated by alpha-helical interfaces. Stapled peptides are hydrocarbon-constrained alpha helices which have emerged as a class of molecular probes and therapeutices capable of targeting molecular pathways with a high degree of selectivity both in vitro and in vivo. Given their ease of synthesis and their drug-like properties, our group has focused on targeting signaling systems ranging from protein-protein interactions relevant in cancer including the p53-HDM2-HDMX axis, and the linear ubiquitin assembly chain complex (LUBAC). More recently we have shifted our focus to develop compounds that target protein-DNA interaction, and this foray has led us to the study of transcription factor interactions in bacterial and eukaryotic systems. We have embarked on a study of the bacterial transcription factor sigma-54, which is responsible for the pathogenicity of several disease-causing bacteria, and we are currently testing compounds that target the interaction between sigma-54 and its promoters. On the eukaryotic side, we have created compounds aimed towards the disruption of the protein-DNA interactions mediated by the myc oncogene.

Scientific Focus Areas:
Cancer Biology, Chemical Biology, Microbiology and Infectious Diseases, Molecular Pharmacology

Publications

Selected Recent Publications
  1. Yang Y, Schmitz R, Mitala JJ, Whiting A, Xiao W, Ceribelli M, Wright GW, Zhao H, Yang Y, Xu W, Rosenwald A, Ott G, Gascoyne RD, Connors JM, Rimsza LM, Campo E, Jaffe ES, Delabie J, Smeland EB, Braziel RM, Tubbs RR, Cook JR, Weisenburger DD, Chan WC, Wiestner A, Kruhlak MJ, Iwai K, Bernal F, Staudt LM.
    Cancer Discov. 4: 480-93, 2014. [ Journal Article ]
  2. de Lange J, Teunisse AF, Vries MV, Lodder K, Lam S, Luyten GP, Bernal F, Jager MJ, Jochemsen AG.
    Am J Cancer Res. 2: 492-507, 2012. [ Journal Article ]
  3. Gembarska A, Luciani F, Fedele C, Russell EA, Dewaele M, Villar S, Zwolinska A, Haupt S, de Lange J, Yip D, Goydos J, Haigh JJ, Haupt Y, Larue L, Jochemsen A, Shi H, Moriceau G, Lo RS, Ghanem G, Shackleton M, Bernal F, Marine J.
    Nat Med. 18: 1239-1247, 2012. [ Journal Article ]
  4. Bernal F, Wade M, Godes M, Davis TN, Whitehead DG, Kung AL, Wahl GM, Walensky LD.
    Cancer Cell. 18: 411-422, 2010. [ Journal Article ]
  5. Pitter K, Bernal F, Labelle J, Walensky LD.
    Methods Enzymol. 446: 387-408, 2008. [ Journal Article ]

Biography

Dr. Bernal did his undergraduate training at the Massachusetts Institute of Technology graduating in 1997 with degrees in chemistry and chemical engineering. He obtained his Ph.D. from The Scripps Research Institute in 2002 after performing work on the development of synthetic methodologies for the construction of complex marine natural products in the laboratory of K. C. Nicolaou. Dr. Bernal then returned to Cambridge, MA to undergo postdoctoral training in chemical biology at Harvard University in the group of Gregory L. Verdine. He then continued his foray into cancer chemical biology in the laboratory of Loren D. Walensky at the Dana-Farber Cancer Institute. He established his laboratory in the Metabolism Branch (now the Lymphoid Malignancies Branch) of the Center for Cancer Research at NCI in 2010. His research focus involves the investigation and manipulation of cancer pathogenesis pathways with synthetic molecules.

Positions

Position Number of Positions Contact E-mail Contact Name Contact Phone
Postdoctoral Fellow in Cancer Biology 1

bernalf@mail.nih.gov

Federico Bernal 301-846-6723
Postdoctoral Fellow in Chemical Biology 1

bernalf@mail.nih.gov

Federico Bernal 301-846-6723

Team

Name Position
Sterling Payne Postbaccalaureate Fellow
Blaze Pharoah Postbaccalaureate Fellow (CRTA)
Ashley Pitt Student Intern (UGSP Scholar)
Amanda Whiting Ph.D. Postdoctoral Fellow (Visiting)