Structure, folding and design of integral membrane proteins

What is the biophysical basis of transmembrane helix-helix interaction?

We are interested in investigating this process and in developing methods for predicting and designing oligomeric complexes of transmembrane helices.

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News
May 11, 2015

Dr. Ben!

Congratulations to Ben Mueller for successfully defending his PhD thesis in Biochemistry.

During his thesis, Ben has been studying an important transmembrane interaction motif using computational and experimental methods. He has also designed an algorithm that can predict transmembrane dimers from sequence alone. He has published three articles, with two more currently in preparation for submission.

Ben will move to the lab of Jens Meiler at Vanderbilt University at the end of the summer.

April 23, 2015

Congratulations fellowship recepients!

Congratulations to several fellowship recepients in the lab: graduate student Sam Craven for being awarded the Willaim H. Peterson Fellowship for the 2015-16 academic year; undergraduate student Evan Lange for having received a 2015-16 Wisconsin Hilldale Undegraduate/Facutly Reserach Fellowship; and undergraduate student Praisten Tiano for having been awarded a Biochemistry Undergraduate Summer Research Scholarship.

Dec. 15, 2014

Three new PhD students join the lab!

The Senes lab welcomes Gladys Díaz-Vázquez (Biophysics program) and Sam Anderson and Deena Mahbuba (Biochemistry) who just joined!

Dec. 1, 2014

Dr. Loren!

Congratulations to Loren LaPointe for successfully defending her PhD thesis in Biochemistry.

During her time in the lab, Loren has studied the structural organization of the complex formed by two essential proteins of the bacterial divisome, FtsB and FtsL. She has already published 3 papers, and more are likely to come. She will soon move to Tennessee to continue to work on membrane proteins, as a postdoc in the structural biology lab of Chuck Sanders at Vanderbilt University.

Nov. 24, 2014

Dr. Rika!

Congratulations to Rika Khadria for successfully defending her PhD thesis in Biochemistry.

During her time in the lab, Rika has used FRET as a tool for understanding the association of membrane protein complexes. She has already published 4 papers, 3 of which are first author. Rika will stay in the lab for another year to continue single-molecule studies of the FtsB-FtsL complex in collaboration with Aaron Hoskins.

Sep. 15, 2014

CATM prediction and experimental validation of a mitochondrial TM domain

Congratulations to Rika Khadria and Ben Mueller for the publication of their latest paper in JACS! In collaboration with Jon Stefely and Dave Pagliarini, they determined that the TM domain of the mitochondrial kinase ADCK3 self-associates, forming a GASright motif using an extended Gly-rich interface.

  1. Khadria AS, Mueller BK, Stefely JA, Tan CH, Pagliarini DJ and Senes A "A Gly-zipper motif mediates homo-dimerization of the transmembrane domain of the mitochondrial kinase ADCK3" J Am Chem Soc 2014 136, 14068-77

Sep. 3, 2014

A new backbone-dependent energy library

Congratulations to Sabareesh Subramaniam for the publication of his latest paper, an improved version of his previous energy-based conformer library for side chain modeling.

  1. Subramaniam S and Senes A and "Backbone dependency further improves side chain prediction efficiency in the Energy-Based Conformer Library (bEBL)" Proteins 2014 81 (11), 3177-3187
Mar. 13, 2014

Sam Condon is awarded a CIBM Predoctoral Traineeship

Sam is awarded a tranineeship with the Computation and Informatics in Biology and Medicine program. His project focuses on the computational and experimental analysis of desease causing mutation in membrane proteins from large scale data sets.

Feb. 19, 2014

Dr. Sab!

Congratulations to Sabareesh Subramaniam for successfully defending his PhD thesis in Computational Biology.

During his time in the lab, Sab has published 5 papers, 3 of which are first author. Another first-author paper is currently under review and more are likely to come. Sab now works at VMware in Silicon Valley.

Jan. 28, 2014

The fold of the Glycophorin A transmembrane dimer is optimized for formation of Cα-H hydrogen bonds

Congratulations to Ben Mueller and Sabareesh Subramaniam for the publication of their latest paper in PNAS! They demonstrated that a common motif for helix-helix interaction in membrane proteins is optimized for the formation of hydrogen bonds in which the donor is a carbon.

  1. Mueller BK*, Subramaniam S* and Senes A "A frequent, GxxxG-mediated, transmembrane association motif is optimized for the formation of interhelical Cα-H hydrogen bonds" Proc Natl Acad Sci USA 2014 111(10) E888-95 (*authors contributed equally)

Nov. 21, 2013

Rika wins Science Magazine "Dance your PhD" prize

Congratulations to Rika for winning the first prize in Chemistry at the Dance your PhD competition, with an interpretative dance of her thesis project.

Find her video here.

Alessandro Senes
Associate Professor
Department of Biochemistry - UW-Madison
433 Backcock Dr., Room 419
Madison, WI 53706
office (+1) 608-890-2584
lab. (+1) 608-262-7355