www.iip.ufrn.br

Physics and Biology of Proteins

Workshop | Monday, June 12, 2017 - Friday, June 30, 2017

Directors: Gerald Kneller, Vitor Leite, Adam Liwo, Antti Niemi, Steve Plotkin
Date Time Speakers Name Talk Title

Tuesday

June 13, 2017

09:00 am - 10:00 am

Angel Garcia
Los Alamos National Laboratory

Modeling proteins under extreme conditions (minicourse) Part 1

10:00 am - 10:30 am

Coffee break

10:30 am - 11:30 am

Diego Ferreiro
University of Buenos Aires

Frustration in proteins (minicourse) - Part 1

12:00 pm - 02:00 pm

Lunch

02:00 pm - 03:00 pm

Diego Ferreiro
University of Buenos Aires

Frustration in proteins (minicourse) - Part 2

03:30 pm - 04:00 pm

Coffee-break

Wednesday

June 14, 2017

09:00 am - 10:00 am

Angel Garcia
Los Alamos National Laboratory

Modeling proteins under extreme conditions (minicourse) - Part 2

10:00 am - 10:30 am

Coffee break

10:30 am - 11:30 am

Diego Ferreiro
University of Buenos Aires

Frustration in proteins (minicourse) - Part 3

12:00 pm - 02:00 pm

Lunch

02:00 pm - 03:00 pm

Diego Ferreiro
University of Buenos Aires

Frustration in proteins (minicourse) - Part 4

03:00 pm - 03:30 pm

Coffee-break

Thursday

June 15, 2017

09:00 am - 10:00 am

Victor Munoz
Universit of California

Experimental Kinetics of Protein Folding: from Chevron Plots and Phi-Values to Ultrafast Folding Proteins (minicourse. Part I)

10:00 am - 10:30 am

Coffee break

10:30 am - 11:30 am

Angel Garcia
Los Alamos National Laboratory

Modeling proteins under extreme conditions (minicourse) Part 3

12:00 pm - 02:00 pm

Conference Lunch

Friday

June 16, 2017

09:00 am - 10:00 am

Victor Munoz
Universit of California

Mapping Folding Interaction Networks by Nuclear Magnetic Resonance Spectroscopy and Comparison with Simulations (minicourse. Part II)

10:00 am - 10:30 am

Coffee break

10:30 am - 11:30 am

Piotr Sulkowski
University of Warsaw

Knots in Proteins I. Knot Basics (tutorial)

12:00 pm - 02:00 pm

Lunch

02:00 pm - 03:00 pm

Victor Munoz
Universit of California

Protein Folding Studies using Single-Molecule FRET Experiments and Advanced Photon Arrival Analysis (minicourse. Part III)

03:00 pm - 03:30 pm

Coffee-break

03:30 pm - 04:30 pm

Joanna Sulkowska
University of Warsaw

Knots in Proteins II. Folding of knotted proteins (tutorial)

Monday

June 19, 2017

09:00 am - 10:00 am

Gerald Kneller
University of Orléans

Energy landscape picture of quasielastic neutrons scattering from proteins

10:00 am - 10:30 am

Coffee break

10:30 am - 11:15 am

Ugo Bastolla
Universidad Autonoma de Madrid

Modeling selection on protein folding stability

11:15 am - 12:00 pm

Piotr Sulkowski
University of Warsaw

Macromolecular genus as the measure of complexity

12:00 pm - 02:00 pm

Lunch

02:00 pm - 02:45 pm

Konrad Hinsen
Centre de Biophysique Moléculaire in Orléans

The stuff that proteins are made of: physical properties of folded peptide chains

02:45 pm - 03:30 pm

Pawel Dabrowski
Centre of New Technology

Topological knots and links in proteins

03:30 pm - 04:00 pm

Coffee-break

04:00 pm - 04:45 pm

Garegin Papoian
University of Maryland

Structure and Dynamics of Nucleosomes from Atomistic and Coarse-Grained Simulations

05:00 pm - 06:00 pm

Poster session

Tuesday

June 20, 2017

09:00 am - 10:00 am

Garegin Papoian
University of Maryland

Coarse-Grained Modeling of Biomolecules: A Brief History and Overview

10:00 am - 10:30 am

Coffee break

10:30 am - 11:15 am

Cezary Czaplewski
University of Gdansk

Template-based protein structure prediction using coarse-grained UNRES simulations

11:15 am - 12:00 pm

Victor Munoz
Universit of California

Unfolding Coupled to Assembly as Molecular Mechanism to Build Allosteric Macromolecular Complexes

12:00 pm - 02:00 pm

Lunch

02:00 pm - 02:45 pm

Laurent Dardenne
National Laboratory of Scientific Computation - LNCC

Strategies for Template-Free Protein Structure Prediction

02:45 pm - 03:30 pm

Joanna Sulkowska
University of Warsaw

Methyl transfer by substrate signaling from a knotted protein fold

03:30 pm - 04:00 pm

Coffee-break

04:00 pm - 05:00 pm

Jose Nelson Onuchic
Rice University

Funnels and Landscapes in protein folding: a historical perspective (colloquium)

Wednesday

June 21, 2017

09:00 am - 10:00 am

Paul Whitford
Northeastern University

Dissecting the factors that govern ribosome function

10:00 am - 10:30 am

Coffee break

10:30 am - 11:15 am

Thomas Needham
Ohio State University

Elastic Shape Analysis for Curves

11:15 am - 12:00 pm

Angel Garcia
Los Alamos National Laboratory

Molecular Simulations of Cosolvent effects on Protein and RNA Stability

12:00 pm - 02:00 pm

Lunch

02:00 pm - 02:45 pm

Adam Sieradzan
University of Gdansk

Influence of disulfide bonds on mechanical Stability of ribunuclease A

02:45 pm - 03:30 pm

Alexander Gorsky
IITP, Moscow

New crtitical and collective phenomena in the random networks and TAD's in genome

03:30 pm - 04:00 pm

Coffee-break

04:00 pm - 05:00 pm

Rodrigo Romcy Pereira
Brain Institute

On protein phenotypes in the brain: evolutionarily selected and engineered tools for neuroscience

05:00 pm - 05:45 pm

Paul Whitford
Northeastern University

Structure-based model workshop

07:30 pm - 10:00 pm

Conference Dinner

Thursday

June 22, 2017

09:00 am - 10:00 am

Hue Sun Chan
University of Toronto

Conformational Heterogeneity and Organelle-Like Liquid-Liquid Phase Separation of Intrinsically Disordered Proteins

10:00 am - 10:30 am

Coffee break

10:30 am - 11:15 am

Olga Dudko
University of California, San Diego

Folding mechanisms: Distinguishing signatures and functional consequences

11:15 am - 12:00 pm

Kingshuk Ghosh
University of Denver

Proteome folding, Feynman Diagram and Evolution

12:00 pm - 02:00 pm

Lunch

02:00 pm - 02:45 pm

Antonio Francisco Pereira de Araujo
University of Brasilia

From physics to linguistics in protein folding: Learning the language before cracking the code

02:45 pm - 03:30 pm

Adam Liwo
University of Gda?sk

Geometry-consistent expressions for energy terms in coarse-grained force fields of (bio) polymers with UNRES as an example.

03:30 pm - 04:00 pm

Coffee-break

04:00 pm - 05:00 pm

Valentin Gordeliy
J.-P. Ebel Institute of Structural Biology & Institute of Complex Systems (ICS), Research Centre Juelich

Amazing and unexpected abundance and biological role of light-driven membrane proteins rhodopsins: biological and physical aspects of their structure, function and optogenetic applications

05:00 pm - 05:45 pm

Paul Whitford
Northeastern University

Structure-based model workshop

Friday

June 23, 2017

09:00 am - 10:00 am

Michael Woodside
University of Alberta

Probing protein misfolding at the single-molecule level with force spectroscopy

10:00 am - 10:30 am

Coffee break

10:30 am - 11:15 am

Alexander Molochkov
Far Eastern Federal University

Protein secondary and tertiary structure study within a gauge field theory approach

11:15 am - 12:00 pm

Ronaldo J. Oliveira
Federal University of Triangulo Mineiro

Simplified computational models contributes to tackle biotechnological and health problems

12:00 pm - 02:00 pm

Lunch

02:00 pm - 03:30 pm

Paul Whitford
Northeastern University

Structure-based model workshop

03:30 pm - 04:00 pm

Coffee-break

Monday

June 26, 2017

09:30 am - 10:30 am

Hue Sun Chan
University of Toronto

Funnels, cooperativity, desolvation, and enthalpic barriers in protein folding (minicourse. Part I)

10:00 am - 10:30 am

Coffee break

11:00 am - 12:00 pm

Michael Woodside
University of Alberta

Measuring energy landscapes from folding trajectories of single molecules

12:00 pm - 02:00 pm

Lunch

02:00 pm - 03:00 pm

Vinícius Contessoto
Brazilian Bioethanol Science and Technology Laboratory (CTBE)

Electrostatic interactions in protein folding and stability using simplified models

03:00 pm - 03:30 pm

Coffee-break

Tuesday

June 27, 2017

09:00 am - 10:00 am

Hue Sun Chan
University of Toronto

Nonnative effects in protein folding and evolutionary switches (minicourse. Part II)

10:00 am - 10:30 am

Coffee break

11:00 am - 12:00 pm

Leandro Cristante de Oliveira
UNESP - Rio Preto

Predicting proteins in solution by SAXS and Computational Simulations

12:00 pm - 02:00 pm

Lunch

Wednesday

June 28, 2017

09:00 am - 10:00 am

Hue Sun Chan
University of Toronto

Volumetric effects of elementary hydrophobic interactions on pressure-dependent protein folding (minicourse. Part III)

10:00 am - 10:30 am

Coffee break

12:00 pm - 02:00 pm

Lunch