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Biochemistry and Molecular Biophysics
E-Newsletter


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CONTENTS

Faculty News

Student Awards

Thesis Examinations

Welcome to New BMB Arrivals

Research Awards

Seminar Schedule

Latest Publications
FACULTY NEWS
Faculty Spotlight - Dr. Janice Robertson
“Life began with little bags of garbage,” proposed the physicist Freeman Dyson. “Membranes made of oily scum […] enclosing volumes of dirty water containing miscellaneous garbage.” Billions of years of evolution have shaped cell membranes from simple “bags” into complex and finely-tunable structures. The cell membrane is not just a barrier separating the chaotic extracellular environment from the controlled intracellular space; they allow for the storage of electrical and chemical potential energy, facilitate transport of substances into and out of the cell, and change the cell’s shape according to its biological needs.

Key to these functions are the proteins embedded within the cell membrane. While much is known about how proteins self-assemble in water—changing from a string of polypeptides into a folded, functional shape—relatively little is known about how this is done in the cell membrane. Dr. Janice Robertson, Assistant Professor of Biochemistry and Molecular Biophysics, and her lab use single-molecule techniques and computational modeling to find answers to the questions surrounding membrane protein assembly.

To read the full article, please click here.
Dr. Greg Bowman Appointed Director of
Folding@home Project
Dr. Greg Bowman was appointed as the new Director for the supercomputing project called Folding@home. The project seeks to unravel the mysteries of protein dynamics, including the folding process, and their roles in health and disease. 

Please click here to read more about it.
Dr. Elliot Elson to Receive the 2020 Ignacio Tinoco Award
Dr. Elliot Elson will be awarded the 2020 Ignacio Tinoco Award from the Biophysics Society. The award will be presented to Dr. Elson at the Annual Meeting of the Biophysical Society in San Diego, California on February 15-19, 2020.
Congratulations to Dr. Elson for being selected to receive this honor!

About the Ignacio Tinoco Award of the Biophysical Society (as described by the Biophysical Society on their web page): Professor Tinoco, who was a biophysical chemist, educator, and mentor at Berkeley, contributed to the spectroscopic, thermodynamic, structural, and single-molecule study of biopolymers which consistently deepened our understanding of fundamental biophysical principles, constantly moving the field toward new frontiers.
Through his unconditional devotion to science, he established a highly cooperative, generous, inclusive, and friendly environment for scientific discovery and advancement that should be honored and perpetuated. Accordingly, this award is intended to recognize meritorious investigators who make fundamental and/or seminal contributions to the physical chemistry of biopolymers and/or who actively promote and sustain a collaborative, inclusive, and engaging research environment in the field.

Dr. Elson’s achievements in mentorship and training of researchers are recognized by an annual award to a researcher trainee in our department. The award is funded by an endowment created by colleagues and friends of Dr. Elson in 2015.

For information on joining us to support that effort, please CLICK HERE.
Dr. Michael Kinch released his new book - The End of the Beginning

Left Bank Books welcomed Washington University Vice Chancellor Michael Kinch, on April 4, 2019 for his official launch party and book signing for his new book, The End of the Beginning: Cancer, Immunity, and the Future of a Cure.

The End of the Beginning is a remarkable history of cancer treatment and its dynamic interplay with the immune system. Through Michael Kinch’s experience as a cancer researcher and the head of the oncology program at a leading biotech company, we witness the incredible accumulation of breakthrough science and its rapid translation into life-saving technologies that have begun to dramatically increase the quality and quantity of life for cancer patients. Kinch details the remarkable history of people, science, technology and disease and presents thrilling next-generation technologies that hold the promise to eliminate cancer for some, and perhaps ultimately, for all.

“A richly detailed, expert description of the history of cancer, its treatment, and research that is now producing quantum-leap breakthrough therapy."
--Kirkus Reviews (starred review)

To order a copy, please CLICK HERE.
Awarded Tenure
The Board of Trustees voted at their March 1st, 2019 meeting to award tenure in the Department of Biochemistry and Molecular Biophysics to Dr. Weikai Li. Dr. Li was promoted to the rank of Associate Professor.
The Board of Trustees voted at their May 3rd, 2019 meeting to award tenure in the Department of Biochemistry and Molecular Biophysics to Dr. Greg Bowman. Dr. Bowman was promoted to the rank of Associate Professor.
Student Awards
2019 Elliot Elson Fellowship Recognition Seminar
On February 22nd, 2019, the department held a special seminar to recognize the recipients of the 2017 Elliot Elson Fellowship. Ms. Min Kyung Shinn shared her research on “Assembly and Binding of E. coli RecOR Proteins to SSB C-terminal tails”. Mr. Drake Jensen shared his research on “Mechanisms of transcription represivation in Mycobacterium tuberculosis”.

For more information on these two Elson fellows, please click here.

You can click here to view more photos from the event.
2019 Ceil M. DeGutis Prize in Chemical Biology/Medicinal Chemistry
On June 7, 2019, Dr. Josh Rackers was awarded the 2019 Ceil M. DeGutis Prize in Chemical Biology/Medicinal Chemistry. Dr. Rackers presented his research entitled “HIPPO: A physics-based model for biomolecular interactions”. Dr. Rackers was a graduate student in the Computational and Molecular Biophysics Program. Dr. Rackers was nominated by his thesis mentor Dr. Jay Ponder. In Dr. Ponder’s lab, Josh’s work focused on using the tools of applied quantum mechanics to predict the behavior and interactions of biological molecules. This work is motivated by a deeply held belief that physics holds the answers to many of biology’s most important problems. (more…)
2019 MilliporeSigma Fellowship Seminar
On July 19th, 2019, the department held a special seminar to recognize the recipient of the 2019 MilliporeSigma Fellowship. Mr. Sukrit Singh shared his research on “Allostery in cellular signaling: Capturing biological switches in action”.

For more information on Sukrit Singh, please click here.

You can click here to view photos from the event.
2019 Elliot Elson Fellowship Recognition Seminar
On September 20th, 2019, the department held a special seminar to recognize the recipient of the 2018 Elliot Elson Fellowship. Ms. Sarah Clippinger shared her research on “Assembly and Binding of E. coli RecOR Proteins to SSB C-terminal tails”.

For more information on Sarah, please click here.

You can click here to view photos from the event.
Congratulations to Melanie Ernst
Ms. Melanie Ernst has been elected chair of the 2021 Mechanisms of Membrane Transport GRS.
The GRS is a unique forum for graduate students, post-docs, and other scientists with comparable levels of experience and education to present and exchange new data and cutting edge ideas.
Congratulations Melanie!
Maxwell Zimmerman Awarded Pharmacology Prize
Congratulations to Mr. Maxwell Zimmerman for being awarded the Dr. Philip Needleman Pharmacology Prize.
The award is presented annually from the Department of Developmental Biology to a graduating student demonstrating outstanding achievements it the field of Pharmacology. Maxwell was a PhD student in the Computational and Molecular Biophysics Program – he completed his thesis research in the lab of Dr. Gregory Bowman. (more…)
PhD Thesis Examinations
Sarem Seifu Hailemariam in the program of Molecular Cell Biology in the laboratory of Dr. Peter Burgers. Her thesis was entitled "Regulation of the yeast checkpoint kinase Tel1".
Maxwell Zimmerman in the program of Computational and Molecular Biophysics in the laboratory of Dr. Greg Bowman. His thesis was entitled "FAST Forward Protein Folding and Design".
BMB Department Welcomes...
Jhullian Alston-DBBS Graduate Student in Dr. Andrea Soranno and Dr. Alex Holehouse's labs.
Tommy Blackwell-Research Assistant I in Dr. Michael Greenberg's lab.
Ankita Chadda-DBBS Graduate Student in Dr. Eric Galburt's lab.
Melanie Ernst-DBBS Graduate Student in Dr. Janice Robertson's lab.
Jacquelin Garcia-DBBS Graduate Student in Dr. Michael Greenberg's lab.
Peng He-Postdoctoral Research Associate in Dr. Weikai Li's lab.
Robyn Mahoney-Kruska-Research Technician II in Dr. Janice Robertson's lab.
Upasana Mallimadugula-DBBS Graduate Student in Dr. Greg Bowman's lab.
Smiruthi Ramasubramanian-Postdoctoral Research Associate in Dr. Janice Robertson's lab.
Michael Ward-DBBS Graduate Student in Dr. Greg Bowman's lab.
Mingzhou Zhou-Scientific Program Manager in the Center for Drug Discovery.
Research Awards

September 16th, 2019 – Jim Janetka, PhD, Associate Professor of Biochemistry and Molecular Biophysics, and Co-Founder of ProteXase Therapeutics, Inc., along with Lidija Klampfer, PhD, Co-Founder and Chief Scientific Officer of ProteXase Therapeutics, Inc., received a one-year SBIR grant award from the National Cancer Institute for their research entitled “Inhibitors of pro-HGF activation overcome resistance to anti-EGFR therapy”.

July 23rd, 2019 – Eric Galburt, PhD, Associate Professor, Department of Biochemistry and Molecular Biophysics, received a new four year grant award from the National Institute of General Medical Sciences for his research entitled “Kinetic regulation of mycobacterial transcription”.

June 14th, 2019 – Jim Janetka, PhD, Associate Professor of Biochemistry and Molecular Biophysics, received a two-year Siteman Investment Program (SIP) award from the Siteman Cancer Center and Foundation for Barnes Jewish-Hospital for his research entitled “The role of pericellular serine proteases in tumor progression and resistance to anticancer therapy”.

April 29th, 2019 – Andrea Soranno, PhD, Assistant Professor of Biochemistry and Molecular Biophysics received a new five year grant award from the National Institute on Aging for his research entitled “Conformational and functional analysis of Apolipoprotein E”.
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Upcoming Seminars:

October 15, 2019

BMB Seminar
Dr. Yu Chen
University of South Florida
"Tracking proton transfer in beta-lactamase catalysis using ultrahigh resolution X-ray crystallography"


October 22, 2019

BMB Seminar
Dr. David Gresham
New York University
"Evolution and Gene Expression One Cell at a Time"


October 29, 2019

BMB Seminar
Dr. Charles Sindelar
Yale University
"Cryo-EM studies of molecular motors and their associated filamentous assemblies"


November 5, 2019

BMB Seminar
Dr. Michael Regnier
University of Washington
"Two short stories: 1) Mechanistic studies of the myosin activator 2-deoxy-ATP and 2) hiPSC models of cardiac disease"


November 7, 2019

BMB Seminar
Dr. Andrea Soranno
WUSM
"Single-molecule spectroscopy of disordered proteins: from fundamental biophysics to molecular medicine"


November 12, 2019

BMB Seminar
Dr. Stephen Grill
Max Planck Institute
"TBA"


November 19, 2019

BMB Seminar
Dr. Madeline Shea
University of Iowa
"TBA"


December 3, 2019

BMB Seminar
Dr. Justin Sparks
Harvard Medical School
"A surprising mechanism of DNA replication-coupled repair"


Latest Publications (in date order):


Clippinger S.R., Cloonan P.E., Greenberg L., Ernst M., Stump W.T., & Greenberg M.J. (2019). “Disrupted mechanobiology links the molecular and cellular phenotypes in familial dilated cardiomyopathy” Proc Natl Acad Sci U S A. 2019 Aug 19. pii: 201910962. doi: 10.1073/pnas.1910962116. [Epub ahead of print] (
Abstract)


Ordabayev Y.A., Nguyen B., Kozlov A.G., Jia H., & Lohman T.M. (2019). “UvrD helicase activation by MutL involves rotation of its 2B subdomain.” Proc Natl Acad Sci U S A. 2019 Jul 30. pii: 201905513. doi: 10.1073/pnas.1905513116. [Epub ahead of print] (
Abstract)


Sparks M.A., Singh S.P, Burgers P.M., & Galletto R. (2019). “Complementary roles of Pif1 helicase and single stranded DNA binding proteins in stimulating DNA replication through G-quadruplexes.” Nucleic Acids Res. 2019 Jul 24. pii: gkz608. doi: 10.1093/nar/gkz608. [Epub ahead of print] (
Abstract)


Shinn M.K., Kozlov A.G., Nguyen B., Bujalowski W.M., & Lohman T.M. (2019). “Are the intrinsically disordered linkers involved in SSB binding to accessory proteins?” Nucleic Acids Res. 2019 Jul 22. pii: gkz606. doi: 10.1093/nar/gkz606. [Epub ahead of print] (
Abstract)


Vishnu C. Damalanka, Scott A. Wildman, & James W. Janetka (2019). “Piperidine carbamate peptidomimetic inhibitors of the serine proteases HGFA, matriptase and hepsin” MedChemComm. 18 Jul 2019, doi: 10.1039/C9MD00234K (
Abstract)


Tyagi R., Elfawal M.A., Wildman S.A., Helander J., Bulman C.A., Sakanari J., Rosa B.A., Brindley P.J., Janetka J.W., Aroian R.V., & Mitreva M. (2019). “Identification of small molecule enzyme inhibitors as broad-spectrum anthelmintics.” Sci Rep. 2019 Jun 24;9(1):9085. doi: 10.1038/s41598-019-45548-7. (
Abstract)


Zhu D.X., Garner A.L., Galburt E.A., & Stallings C.L. (2019). “CarD contributes to diverse gene expression outcomes throughout the genome of Mycobacterium tuberculosis” Proc Natl Acad Sci U S A. 2019 Jul 2;116(27):13573-13581. doi: 10.1073/pnas.1900176116. Epub 2019 Jun 19. (
Abstract)


Nguyen B., Ciuba M.A., Kozlov A.G., Levitus M., & Lohman T.M. (2019). “Protein Environment and DNA Orientation Affect Protein-Induced Cy3 Fluorescence Enhancement.” Biophys J. 2019 Jun 7. pii: S0006-3495(19)30448-5. doi: 10.1016/j.bpj.2019.05.026. [Epub ahead of print] (
Abstract)


Jensen D., Ruiz Manzano A., Rammohan J., Stallings C.L., & Galburt E.A. (2019). “CarD and RbpA modify the kinetics of initial transcription and slow promoter escape of the Mycobacterium tuberculosis RNA polymerase.” Nucleic Acids Res. 2019 May 25. pii: gkz449. doi: 10.1093/nar/gkz449. [Epub ahead of print] (
Abstract)


Dyson H.J., Hall K.B., & Piston D.W. (2019). “Economics and Politics of Publishing in Our Mission-Driven Society.” Biophys J. 2019 May 21;116(10):E1-E2. doi: 10.1016/j.bpj.2019.04.019. Epub 2019 May 1. (
Abstract)


Hailemariam S., Kumar S., & Burgers P.M. (2019). “Activation of Tel1ATM kinase requires Rad50 ATPase and long nucleosome-free DNA, but no DNA ends.” J Biol Chem. 2019 Jun 28;294(26):10120-10130. doi: 10.1074/jbc.RA119.008410. Epub 2019 May 9. (
Abstract)


Heitmeier M.R., Hresko R.C., Edwards R.L., Prinsen M.J., Ilagan M.X.G., Odom John A.R, & Hruz P.W. (2019). “Identification of druggable small molecule antagonists of the Plasmodium falciparum hexose transporter PfHT and assessment of ligand access to the glucose permeation pathway via FLAG-mediated protein engineering.” PLoS One. 2019 May 9;14(5):e0216457. doi: 10.1371/journal.pone.0216457. eCollection 2019. (
Abstract)


Barrick S.K., Clippinger S.R., Greenberg L., & Greenberg M.J. (2019). “Computational Tool to Study Perturbations in Muscle Regulation and Its Application to Heart Disease.” Biophys J. 2019 May 7. pii: S0006-3495(19)30379-0. doi: 10.1016/j.bpj.2019.05.002. [Epub ahead of print] (
Abstract)


Harding R.J., Loppnau P., Ackloo S., Lemak A., Hutchinson A., Hunt B., Holehouse A.S., Ho J.C., Fan L., Toledo-Sherman L., Seitova A., & Arrowsmith C.H. (2019). “Design and characterization of mutant and wildtype huntingtin proteins produced from a toolkit of scalable eukaryotic expression systems.” J Biol Chem. 2019 Apr 26;294(17):6986-7001. doi: 10.1074/jbc.RA118.007204. Epub 2019 Mar 6. (
Abstract)


Yang Z., Yan H., Dai W., Jing J., Yang Y., Mahajan S., Zhou Y., Li W., Macaubas C., Mellins E.D., Shih C.C., Fitzpatrick J.A.J., & Faccio R. (2019). “Tmem178 negatively regulates store-operated calcium entry in myeloid cells via association with STIM1.” J Autoimmun. 2019 Jul;101:94-108. doi: 10.1016/j.jaut.2019.04.015. Epub 2019 Apr 22. (
Abstract)


Damalanka V.C. & Janetka J.W. (2019). “Recent progress on inhibitors of the type II transmembrane serine proteases, hepsin, matriptase and matriptase-2.” Future Med Chem. 2019 Apr 4. doi: 10.4155/fmc-2018-0446. [Epub ahead of print] (
Abstract)


Heffern E.F., Ramani R., Marshall G., Kyei G.B. (2019). “Identification of isoform-selective hydroxamic acid derivatives that potently reactivate HIV from latency.” J Virus Erad. 2019 Apr 1;5(2):84-91. (
Abstract)


Michael Kinch (2019). “The End of the Beginning: Cancer, Immunity, and the Future of a Cure” ISBN-13: 978-1643130255, ISBN-10: 1643130250


Wang H., Eschweiler J., Cui W., Zhang H., Frieden C., Ruotolo B.T., & Gross M.L. (2019) “Native Mass Spectrometry, Ion Mobility, Electron-Capture Dissociation, and Modeling Provide Structural Information for Gas-Phase Apolipoprotein E Oligomers.” J Am Soc Mass Spectrom. 2019 Mar 18. doi: 10.1007/s13361-019-02148-z. [Epub ahead of print] (
Abstract)


Tomko E.J. & Galburt E.A. (2019). “Single-molecule approach for studying RNAP II transcription initiation using magnetic tweezers.” Methods. 2019 Mar 18. pii: S1046-2023(18)30297-4. doi: 10.1016/j.ymeth.2019.03.010. [Epub ahead of print] (
Abstract)


Singh S.P., Kukshal V., & Galletto R. (2019). “A stable tetramer is not the only oligomeric state that mitochondrial single-stranded DNA binding proteins can adopt.” J Biol Chem. 2019 Mar 15;294(11):4137-4144. doi: 10.1074/jbc.RA118.007048. Epub 2019 Jan 7. (
Abstract)


Porter J.R., Moeder K.E., Sibbald C.A., Zimmerman M.I., Hart K.M., Greenberg M.J., & Bowman G.R. (2019). “Cooperative Changes in Solvent Exposure Identify Cryptic Pockets, Switches, and Allosteric Coupling.” Biophys J. 2019 Mar 5;116(5):818-830. doi: 10.1016/j.bpj.2018.11.3144. Epub 2019 Jan 25. (
Abstract)


Mondol T., Stodola J.L., Galletto R., & Burgers P.M. (2019). “PCNA accelerates the nucleotide incorporation rate by DNA polymerase δ.” Nucleic Acids Res. 2019 Feb 28;47(4):1977-1986. doi: 10.1093/nar/gky1321. (
Abstract)


Burgers, P.M. (2019). “Solution to the 50-year-old Okazaki-fragment problem.” Proc Natl Acad Sci U S A. 2019 Feb 26;116(9):3358-3360. doi: 10.1073/pnas.1900372116. Epub 2019 Feb 15. (
Abstract)


Frieden, C. (2019). “Protein oligomerization as a metabolic control mechanism: Application to apoE.” Protein Sci. 2019 Apr;28(4):837-842. doi: 10.1002/pro.3583. Epub 2019 Feb 18. (
Abstract)

Copyright © 2019 Washington University School of Medicine - Biochemistry and Molecular Biophysics Dept., All rights reserved.


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