Voelz, Vincent A.: search on Z-Library

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1

The protein folding problem: when will it be solved?

Ken A Dill, S Banu Ozkan, Thomas R Weikl, John D Chodera, Vincent A Voelz

Journal:

Current Opinion in Structural Biology

Year:

2007

Language:

english

File:

PDF, 131 KB

english, 2007

2

Microcanonical coarse-graining of the kinetic Ising model

Sigg, Daniel, Voelz, Vincent A., Carnevale, Vincenzo

Journal:

The Journal of Chemical Physics

Year:

2020

File:

PDF, 4.91 MB

2020

3

Exploring the Effect of Preorganization on Binding Affinity in Cyclized Peptidomimetics

Terry, Allison, Voelz, Vincent

Journal:

Biophysical Journal

Year:

2019

Language:

english

File:

PDF, 62 KB

english, 2019

4

Exploring zipping and assembly as a protein folding principle

Vincent A. Voelz, Ken A. Dill

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 884 KB

english, 2007

5

Binding of MDM2 Inhibitors via Biased Sampling and Multi-Ensemble Markov Models

Hurley, Matthew F., Voelz, Vincent

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 58 KB

2020

6

Calculation of rate spectra from noisy time series data

Vincent A. Voelz, Vijay S. Pande

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2012

Language:

english

File:

PDF, 2.10 MB

english, 2012

7

Examining Protein Sequence Perturbations with Markov State Models

Voelz, Vincent A., Zhou, Guangfeng, Elman, Brandon, Razavi Majarashin, Asghar, Delikatny, Edward S.

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 38 KB

english, 2013

8

Using Kinetic Network Models to Probe Non-Native Salt-Bridge Effects on α-Helix Folding

Zhou, Guangfeng, Voelz, Vincent Alvin

Journal:

Journal of Physical Chemistry B

Year:

2016

Language:

english

File:

PDF, 9.77 MB

english, 2016

9

Markov State Models of Millisecond Folder ACBP Reveals New Views of the Folding Reaction

Voelz, Vincent A., Jäger, Marcus, Zhu, Li, Yao, Shuhuai, Bakajin, Olgica, Weiss, Shimon, Lapidus, Lisa J., Pande, Vijay S.

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 37 KB

english, 2011

10

Kinetic Network Models of Tryptophan Mutations in β-Hairpins Reveal the Importance of Non-Native Interactions

Razavi, Asghar M., Voelz, Vincent A.

Journal:

Journal of Chemical Theory and Computation

Year:

2015

Language:

english

File:

PDF, 3.59 MB

english, 2015

11

Improved Estimates of Folding Stabilities and Kinetics from Multiensemble Markov Models

Zhang, Si, Voelz, Vincent

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 42 KB

2020

12

Understanding Selectivity of the Na+/K+ -ATPase using a Computational Approach

Razavi, Asghar M., Carnevale, Vincenzo, Delemotte, Lucie, Voelz, Vincent A.

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 43 KB

english, 2015

13

Probing the Nanosecond Dynamics of a Designed Three-Stranded Beta-Sheet with a Massively Parallel Molecular Dynamics Simulation

Voelz, Vincent A., Luttmann, Edgar, Bowman, Gregory R., Pande, Vijay S.

Journal:

International Journal of Molecular Sciences

Year:

2009

Language:

english

File:

PDF, 2.01 MB

english, 2009

14

Reconciling Simulated Ensembles of Apomyoglobin with Experimental HDX Data

Wan, Hongbin, Ge, Yunhui, Razavi, Asghar, Voelz, Vincent

Journal:

Biophysical Journal

Year:

2018

File:

PDF, 62 KB

2018

15

Efficient Estimation of Binding Kinetics using Scaled Non-Bonded Interactions and Harmonic Restraints

Ge, Yunhui, Voelz, Vincent A.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 42 KB

2020

16

Diffusion of Unfolded Acyl-Coenzyme A-Binding Protein Over a Complete Range of Denaturant

Chen, Yujie, Voelz, Vincent A., Bakajin, Olgica, Pande, Vijay S., Lapidus, Lisa J.

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 36 KB

english, 2011

17

Exposing the Nucleation Site in α-Helix Folding: A Joint Experimental and Simulation Study

Acharyya, Arusha, Ge, Yunhui, Wu, Haifan, DeGrado, William F., Voelz, Vincent Alvin, Gai, Feng

Journal:

Journal of Physical Chemistry B

Year:

2019

Language:

english

File:

PDF, 6.42 MB

english, 2019

18

Insights Into Peptoid Helix Folding Cooperativity From an Improved Backbone Potential

Mukherjee, Sudipto, Zhou, Guangfeng, Michel, Chris, Voelz, Vincent Alvin

Journal:

Journal of Physical Chemistry B

Year:

2015

Language:

english

File:

PDF, 5.72 MB

english, 2015

19

SPIE Proceedings [SPIE Optical Science and Technology, the SPIE 49th Annual Meeting - Denver, CO (Monday 2 August 2004)] Free-Space Laser Communications IV - Target edge response

Belen'kii, Mikhail S., Gillespie, Patti, Gimmestad, Gary G., Hughes, Kevin, Roberts, David, Rye, Vincent, Stewart, John M., Wood, Jack, Ricklin, Jennifer C., Voelz, David G.

Year:

2004

Language:

english

File:

PDF, 705 KB

english, 2004

20

FOX01 Transcription Factor Folding Landscape Elucidates the Role of Disease Mutations

Novack, Dylan, Qian, Lei, Baxter, Richard H.G., Voelz, Vincent

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 45 KB

2020

21

Revealing the Early Events of ACBP Folding by Ultrarapid Mixing

Zhu, Li, Voelz, Vincent A., Bakajin, Olgica, Pande, Vijay S., Lapidus, Lisa J.

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 38 KB

english, 2011

22

Surprisal Metrics for Quantifying Perturbed Conformational Dynamics in Markov State Models

Voelz, Vincent A., Elman, Brandon, Razavi, Asghar M., Zhou, Guangfeng

Journal:

Journal of Chemical Theory and Computation

Year:

2014

Language:

english

File:

PDF, 2.60 MB

english, 2014

23

Computational and experimental evaluation of designed beta-cap hairpins using molecular simulations and kinetic network models

Ge, Yunhui, Kier, Brandon L., Andersen, Niels H., Voelz, Vincent Alvin

Journal:

Journal of Chemical Information and Modeling

Year:

2017

Language:

english

File:

PDF, 14.50 MB

english, 2017

24

Peptoid conformational free energy landscapes from implicit-solvent molecular simulations in AMBER

Vincent A. Voelz, Ken A. Dill, Ilya Chorny

Journal:

Year:

2011

Language:

english

File:

PDF, 1.80 MB

english, 2011

25

Unfolded-State Dynamics and Structure of Protein L Characterized by Simulation and Experiment

Voelz, Vincent A., Singh, Vijay R., Wedemeyer, William J., Lapidus, Lisa J., Pande, Vijay S.

Journal:

Journal of the American Chemical Society

Year:

2010

Language:

english

File:

PDF, 1.79 MB

english, 2010

26

Precisely tuneable energy transfer system using peptoid helix-based molecular scaffold

Kang, Boyeong, Yang, Woojin, Lee, Sebok, Mukherjee, Sudipto, Forstater, Jonathan, Kim, Hanna, Goh, Byoungsook, Kim, Tae-Young, Voelz, Vincent A., Pang, Yoonsoo, Seo, Jiwon

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 3.75 MB

english, 2017

27

Unveiling Ligand Binding Mechanisms through Molecular Simulation: Lessons and Progress from Markov State Model Approaches

Voelz, Vincent A.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 57 KB

2020

28

BICePs 2.0: New Tools for Bayesian Inference of Conformational Populations from Theory and Experiment

Ge, Yunhui, Raddi, Robert M., Voelz, Vincent A.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 61 KB

2020

29

Slow Unfolded-State Structuring in Acyl-CoA Binding Protein Folding Revealed by Simulation and Experiment

Voelz, Vincent A., Jäger, Marcus, Yao, Shuhuai, Chen, Yujie, Zhu, Li, Waldauer, Steven A., Bowman, Gregory R., Friedrichs, Mark, Bakajin, Olgica, Lapidus, Lisa J., Weiss, Shimon, Pande, Vijay S.

Journal:

Journal of the American Chemical Society

Year:

2012

Language:

english

File:

PDF, 2.94 MB

english, 2012

30

Bayesian inference of conformational state populations from computational models and sparse experimental observables

Voelz, Vincent A., Zhou, Guangfeng

Journal:

Journal of Computational Chemistry

Year:

2014

Language:

english

File:

PDF, 683 KB

english, 2014

31

Molecular Dynamics Simulation of Site-Directed Spin Labeling: Experimental Validation in Muscle Fibers

LaConte, Leslie E.W., Voelz, Vincent, Nelson, Wendy, Enz, Michael, Thomas, David D.

Journal:

Biophysical Journal

Year:

2002

Language:

english

File:

PDF, 659 KB

english, 2002

32

Computational Screening and Selection of Cyclic Peptide Hairpin Mimetics by Molecular Simulation and Kinetic Network Models

Razavi, Asghar M., Wuest, William M., Voelz, Vincent A.

Journal:

Journal of Chemical Information and Modeling

Year:

2014

Language:

english

File:

PDF, 1.99 MB

english, 2014

33

Control of porphyrin interactions via structural changes of peptoid scaffold

Yang, Woojin, Kang, Boyeong, Voelz, Vincent, Seo, Jiwon

Journal:

Organic & Biomolecular Chemistry

Year:

2017

Language:

english

File:

PDF, 1.58 MB

english, 2017

34

Using Molecular Simulation to Understand the Role of Conserved Residues in an Extremophilic Beta-Galactosidase

Solieva, Shahlo, Voelz, Vincent A.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 39 KB

2020

35

Probing antibody internal dynamics with fluorescence anisotropy and molecular dynamics simulations

Kortkhonjia, Ekaterine, Brandman, Relly, Zhou, Joe Zhongxiang, Voelz, Vincent A., Chorny, Ilya, Kabakoff, Bruce, Patapoff, Thomas W., Dill, Ken A., Swartz, Trevor E.

Journal:

Year:

2013

Language:

english

File:

PDF, 1.81 MB

english, 2013

36

Model Selection Using BICePs: A Bayesian Approach for Force Field Validation and Parameterization

Ge, Yunhui, Voelz, Vincent A.

Journal:

Journal of Physical Chemistry B

Year:

2018

Language:

english

File:

PDF, 1.83 MB

english, 2018

37

Fluorinated Aromatic Monomers as Building Blocks to Control α-Peptoid Conformation and Structure

Gimenez, Diana, Zhou, Guangfeng, Hurley, Matthew F.D, Aguilar, Juan A, Voelz, Vincent A., Cobb, Steven L.

Journal:

Journal of the American Chemical Society

Year:

2019

Language:

english

File:

PDF, 2.64 MB

english, 2019

38

Information Content of Molecular Structures

Sullivan, David C., Aynechi, Tiba, Voelz, Vincent A., Kuntz, Irwin D.

Journal:

Biophysical Journal

Year:

2003

Language:

english

File:

PDF, 359 KB

english, 2003

39

Taming the complexity of protein folding

Gregory R Bowman, Vincent A Voelz, Vijay S Pande

Journal:

Current Opinion in Structural Biology

Year:

2011

Language:

english

File:

PDF, 414 KB

english, 2011

40

Blind Test of Physics-Based Prediction of Protein Structures

Shell, M. Scott, Ozkan, S. Banu, Voelz, Vincent, Wu, Guohong Albert, Dill, Ken A.

Journal:

Biophysical Journal

Year:

2009

Language:

english

File:

PDF, 1.21 MB

english, 2009

41

A Molecular Interpretation of 2D IR Protein Folding Experiments with Markov State Models

Baiz, Carlos R., Lin, Yu-Shan, Peng, Chunte Sam, Beauchamp, Kyle A., Voelz, Vincent A., Pande, Vijay S., Tokmakoff, Andrei

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 2.64 MB

english, 2014

42

Using Kinetic Network Models to Understand Folding Mechanisms of GB1 Hairpin and its Trpzip Variants

Voelz, Vincent A., Razavi, Asghar

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 45 KB

english, 2015

43

The Diverted Total Synthesis of Carolacton-Inspired Analogs Yields Three Distinct Phenotypes in Streptococcus mutans Biofilms

Solinski, Amy E., Koval, Alexander, Brzozowski, Richard, Morrison, Kelly, Fraboni, Americo J., Carson, Carrie, Eshraghi, Anisa, Zhou, Guangfeng, Quivey, Robert, Voelz, Vincent A., Buttaro, Bettina A.,

Journal:

Journal of the American Chemical Society

Year:

2017

Language:

english

File:

PDF, 678 KB

english, 2017

44

Binding Pathways of Phenylalanine to the Dimeric Regulatory Domain of Human PAH Reveal a LID Gating Mechanism

Ge, Yunhui, Jaffe, Eileen K., Voelz, Vincent A.

Journal:

Biophysical Journal

Year:

2018

Language:

english

File:

PDF, 48 KB

english, 2018

45

Simulations of the regulatory ACT domain of human phenylalanine hydroxylase unveil its mechanism of phenylalanine binding

Ge, Yunhui, Borne, Elias, Stewart, Shannon, Hansen, Michael R, Arturo, Emilia C, Jaffe, Eileen K., Voelz, Vincent A

Journal:

Journal of Biological Chemistry

Year:

2018

Language:

english

File:

PDF, 4.18 MB

english, 2018

46

Adaptive Markov state model estimation using short reseeding trajectories

Wan, Hongbin, Voelz, Vincent A.

Journal:

The Journal of Chemical Physics

Year:

2020

File:

PDF, 5.28 MB

2020

47

Molecular Simulation of ab Initio Protein Folding for a Millisecond Folder NTL9(1−39)

Voelz, Vincent A., Bowman, Gregory R., Beauchamp, Kyle, Pande, Vijay S.

Journal:

Journal of the American Chemical Society

Year:

2010

Language:

english

File:

PDF, 967 KB

english, 2010

48

Markov State Model Reveals Folding and Functional Dynamics in Ultra-Long MD Trajectories

Lane, Thomas J., Bowman, Gregory R., Beauchamp, Kyle, Voelz, Vincent A., Pande, Vijay S.

Journal:

Journal of the American Chemical Society

Year:

2011

Language:

english

File:

PDF, 5.06 MB

english, 2011

49

Predicting Peptide Structures in Native Proteins from Physical Simulations of Fragments

Voelz, Vincent A., Shell, M. Scott, Dill, Ken A., Bystroff, Chris

Journal:

PLoS Computational Biology

Year:

2009

Language:

english

File:

PDF, 768 KB

english, 2009

50

Elucidating the inhibition of peptidoglycan biosynthesis in Staphylococcus aureus by albocycline, a macrolactone isolated from Streptomyces maizeus

Liang, Hai, Zhou, Guangfeng, Ge, Yunhui, D'Ambrosio, Elizabeth A., Eidem, Tess M., Blanchard, Catlyn, Shehatou, Cindy, Chatare, Vijay K., Dunman, Paul M., Valentine, Ann M., Voelz, Vincent A., Grimes,

Journal:

Bioorganic & Medicinal Chemistry

Year:

2018

Language:

english

File:

PDF, 1.40 MB

english, 2018

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