Garegin A. Papoian: search on Z-Library

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1

Gibbs free energy change of a discrete chemical reaction event

Floyd, Carlos, Papoian, Garegin A., Jarzynski, Christopher

Journal:

The Journal of Chemical Physics

Year:

2020

Language:

english

File:

PDF, 2.12 MB

english, 2020

2

AWSEM-MD: Protein Structure Prediction Using Coarse-Grained Physical Potentials and Bioinformatically Based Local Structure Biasing

Davtyan, Aram, Schafer, Nicholas P., Zheng, Weihua, Clementi, Cecilia, Wolynes, Peter G., Papoian, Garegin A.

Journal:

Journal of Physical Chemistry B

Year:

2012

Language:

english

File:

PDF, 5.14 MB

english, 2012

3

Stochastic Ratcheting on a Funneled Energy Landscape Is Necessary for Highly Efficient Contractility of Actomyosin Force Dipoles

Komianos, James E., Papoian, Garegin A.

Journal:

Physical Review X

Year:

2018

Language:

english

File:

PDF, 2.94 MB

english, 2018

4

Protein functional landscapes, dynamics, allostery: a tortuous path towards a universal theoretical framework

Zhuravlev, Pavel I., Papoian, Garegin A.

Journal:

Quarterly Reviews of Biophysics

Year:

2010

Language:

english

File:

PDF, 874 KB

english, 2010

5

Functional versus folding landscapes: the same yet different

Pavel I Zhuravlev, Garegin A Papoian

Journal:

Current Opinion in Structural Biology

Year:

2010

Language:

english

File:

PDF, 323 KB

english, 2010

6

Computing Free Energy of a Large-Scale Allosteric Transition in Adenylate Kinase Using All Atom Explicit Solvent Simulations

Potoyan, Davit A., Zhuravlev, Pavel I., Papoian, Garegin A.

Journal:

Journal of Physical Chemistry B

Year:

2012

Language:

english

File:

PDF, 3.09 MB

english, 2012

7

Stochastic Resonance in Protein Folding Dynamics

Davtyan, Aram, Platkov, Max, Gruebele, Martin, Papoian, Garegin A.

Journal:

Year:

2016

Language:

english

File:

PDF, 1.48 MB

english, 2016

8

Computing free energies of protein conformations from explicit solvent simulations

Pavel I. Zhuravlev, Sangwook Wu, Davit A. Potoyan, Michael Rubinstein, Garegin A. Papoian

Journal:

Year:

2010

Language:

english

File:

PDF, 887 KB

english, 2010

9

Design of Active Transport Must Be Highly Intricate: A Possible Role of Myosin and Ena/VASP for G-Actin Transport in Filopodia

Zhuravlev, Pavel I., Der, Bryan S., Papoian, Garegin A.

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 531 KB

english, 2010

10

Energy Landscape Analysis of Protein Dimers

Yaakov Levy, Garegin A. Papoian, José N. Onuchic, Peter G. Wolynes

Journal:

Israel Journal of Chemistry

Year:

2004

Language:

english

File:

PDF, 2.44 MB

english, 2004

11

Polyionic Charge Density Plays a Key Role in Differential Recognition of Mobile Ions by Biopolymers

Savelyev, Alexey, Papoian, Garegin A.

Journal:

Journal of Physical Chemistry B

Year:

2008

Language:

english

File:

PDF, 886 KB

english, 2008

12

Tensile force-induced cytoskeletal remodeling: Mechanics before chemistry

Li, Xiaona, Ni, Qin, He, Xiuxiu, Kong, Jun, Lim, Soon-Mi, Papoian, Garegin A., Trzeciakowski, Jerome P., Trache, Andreea, Jiang, Yi, Saucerman, Jeffrey J.

Journal:

PLoS Computational Biology

Year:

2020

File:

PDF, 4.55 MB

2020

13

Mechano-Chemical Feedbacks Regulate Actin Mesh Growth in Lamellipodial Protrusions

Hu, Longhua, Papoian, Garegin A.

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 853 KB

english, 2010

14

Computational Modeling of Nucleosomal Mechanics and Epigenetic Modifications

Pitman, Mary, Dalal, Yamini, Papoian, Garegin A., Melters, DaniÃ«l P., Rakshit, Tatini, Dimitriadis, Emilios K., Bui, Minh

Journal:

Biophysical Journal

Year:

2020

Language:

english

File:

PDF, 41 KB

english, 2020

15

Interfacial Energy Conversion in Ru II Polypyridyl-Derivatized Oligoproline Assemblies on TiO 2

Ma, Da, Bettis, Stephanie E., Hanson, Kenneth, Minakova, Maria, Alibabaei, Leila, Fondrie, William, Ryan, Derek M., Papoian, Garegin A., Meyer, Thomas J., Waters, Marcey L., Papanikolas, John M.

Journal:

Journal of the American Chemical Society

Year:

2013

Language:

english

File:

PDF, 515 KB

english, 2013

16

Stochastic Simulation Study of the Role of Capping and Anti-Capping Proteins in Regulating Actin Network Growth

Hu, Longhua, Papoian, Garegin A.

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 48 KB

english, 2011

17

Insight into the Molecular Origins of the Internal Friction in Unfolded Proteins

Echeverria, Ignacia, Makarov, Dmitrii E., Papoian, Garegin

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 40 KB

english, 2013

18

Theoretical and computational validation of the Kuhn barrier friction mechanism in unfolded proteins

Avdoshenko, Stanislav M., Das, Atanu, Satija, Rohit, Papoian, Garegin A., Makarov, Dmitrii E.

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 2.53 MB

english, 2017

19

Generalized perturbational molecular orbital (PMO) theory

Dong-Kyun Seo, Garegin Papoian, Roald Hoffmann

Journal:

International Journal of Quantum Chemistry

Year:

2000

Language:

english

File:

PDF, 230 KB

english, 2000

20

Tunable Energy Transfer Rates via Control of Primary, Secondary, and Tertiary Structure of a Coiled Coil Peptide Scaffold

Wilger, Dale J., Bettis, Stephanie E., Materese, Christopher K., Minakova, Maria, Papoian, Garegin A., Papanikolas, John M., Waters, Marcey L.

Journal:

Inorganic Chemistry

Year:

2012

Language:

english

File:

PDF, 3.30 MB

english, 2012

21

Protein structure prediction: Do hydrogen bonding and water-mediated interactions suffice?

Vanessa Oklejas, Chenghang Zong, Garegin A. Papoian, Peter G. Wolynes

Journal:

Year:

2010

Language:

english

File:

PDF, 1.00 MB

english, 2010

22

High Resolution Approach to the Native State Ensemble Kinetics and Thermodynamics

Wu, Sangwook, Zhuravlev, Pavel I., Papoian, Garegin A.

Journal:

Biophysical Journal

Year:

2008

Language:

english

File:

PDF, 527 KB

english, 2008

23

Role of Topology, Nonadditivity, and Water-Mediated Interactions in Predicting the Structures of α/β Proteins

Zong, Chenghang, Papoian, Garegin A., Ulander, Johan, Wolynes, Peter G.

Journal:

Journal of the American Chemical Society

Year:

2006

Language:

english

File:

PDF, 798 KB

english, 2006

24

Environmental Fluctuations and Stochastic Resonance in Protein Folding

Dave, Kapil, Davtyan, Aram, Papoian, Garegin A., Gruebele, Martin, Platkov, Max

Journal:

Year:

2016

Language:

english

File:

PDF, 1.73 MB

english, 2016

25

Rigorous Calculation of Free Energy Difference Between Open and Closed States of Adenylate Kinase from Explicit Solvent Molecular Dynamics

Zhuravlev, Pavel I., Potoyan, Davit A., Rubinstein, Michael, Papoian, Garegin A.

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 57 KB

english, 2011

26

Promiscuous histone mis-assembly is actively prevented by chaperones

Zhao, Haiqing, Winogradoff, David, Bui, Minh, Dalal, Yamini, Papoian, Garegin A.

Journal:

Journal of the American Chemical Society

Year:

2016

Language:

english

File:

PDF, 3.53 MB

english, 2016

27

Quantifying Dissipation in Actomyosin Networks

Floyd, Carlos, Jarzynski, Christopher, Papoian, Garegin A.

Journal:

Biophysical Journal

Year:

2019

Language:

english

File:

PDF, 44 KB

english, 2019

28

Rapid Treadmilling and Myosin Motors Synergistically Induce Formation of Ring-Like Actomyosin Architectures and Cortexes

Ni, Qin, Upadhyaya, Arpita, Papoian, Garegin A.

Journal:

Biophysical Journal

Year:

2019

Language:

english

File:

PDF, 43 KB

english, 2019

29

Remarkable structural transformations of actin bundles are driven by their initial polarity, motor activity, crosslinking, and filament treadmilling

Chandrasekaran, Aravind, Upadhyaya, Arpita, Papoian, Garegin A., Cui, Qiang

Journal:

PLoS Computational Biology

Year:

2019

File:

PDF, 2.58 MB

2019

30

Building up Complexity from Strips and Sheets: The Electronic Structure of the La12Mn2Sb30Alloy

Garegin Papoian, Roald Hoffmann

Journal:

Journal of Solid State Chemistry

Year:

1998

Language:

english

File:

PDF, 960 KB

english, 1998

31

Electrostatic, Steric, and Hydration Interactions Favor Na + Condensation around DNA Compared with K +

Savelyev, Alexey, Papoian, Garegin A.

Journal:

Journal of the American Chemical Society

Year:

2006

Language:

english

File:

PDF, 615 KB

english, 2006

32

Probing the Configurational Space of a Metalloprotein Core: An ab Initio Molecular Dynamics Study of Duo Ferro 1 Binuclear Zn Cofactor

Papoian, Garegin A., DeGrado, William F., Klein, Michael L.

Journal:

Journal of the American Chemical Society

Year:

2003

Language:

english

File:

PDF, 536 KB

english, 2003

33

A variational approach to the stochastic aspects of cellular signal transduction

Lan, Yueheng, Wolynes, Peter G., Papoian, Garegin A.

Journal:

The Journal of Chemical Physics

Year:

2006

Language:

english

File:

PDF, 233 KB

english, 2006

34

The Acetylation Landscape of the H4 Histone Tail

Winogradoff, David, Echeverria, Ignacia, Papoian, Garegin

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 40 KB

english, 2015

35

Induced Fit, Folding, and Recognition of the NF-κB-Nuclear Localization Signals by IκBα and IκBβ

Joachim Lätzer, Garegin A. Papoian, Michael C. Prentiss, Elizabeth A. Komives, Peter G. Wolynes

Journal:

Journal of Molecular Biology

Year:

2007

Language:

english

File:

PDF, 1.13 MB

english, 2007

36

AWSEM-IDP: A Coarse-Grained Force Field for Intrinsically Disordered Proteins

Wu, Hao, Wolynes, Peter G., Papoian, Garegin A.

Journal:

Journal of Physical Chemistry B

Year:

2018

Language:

english

File:

PDF, 1.76 MB

english, 2018

37

A Balance Between Elastic and Rigidified CENP-A Nucleosomes Govern Centromeric Chromatin Fidelity

Melters, DaniÃ«l P., Pitman, Mary, Rakshit, Tatini, Dimitriadis, Emilios K., Bui, Minh, Papoian, Garegin A., Dalal, Yamini

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 41 KB

2020

38

Capsid Deformations Reveal Complex Mechano-Chemistry

Popov, Konstantin I., Papoian, Garegin A.

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 194 KB

english, 2013

39

Role of Water Mediated Interactions in Protein−Protein Recognition Landscapes

Papoian, Garegin A., Ulander, Johan, Wolynes, Peter G.

Journal:

Journal of the American Chemical Society

Year:

2003

Language:

english

File:

PDF, 476 KB

english, 2003

40

Simulating Complex Mechanochemistry of Actin Networks

Komianos, James E., Popov, Konstantin, Papoian, Garegin

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 36 KB

english, 2015

41

Low-dimensional manifold of actin polymerization dynamics

Floyd, Carlos, Jarzynski, Christopher, Papoian, Garegin

Journal:

New Journal of Physics

Year:

2017

Language:

english

File:

PDF, 1.57 MB

english, 2017

42

Rapid Treadmilling and Myosin Motors Synergistically Induce Formation of Ring-Like Actomyosin Architectures and Cortexes

Ni, Qin, Upadhyaya, Arpita, Papoian, Garegin A.

Journal:

Biophysical Journal

Year:

2019

File:

PDF, 43 KB

2019

43

Quantifying dissipation in actomyosin networks

Floyd, Carlos, Papoian, Garegin A., Jarzynski, Christopher

Journal:

Interface Focus

Year:

2019

Language:

english

File:

PDF, 913 KB

english, 2019

44

ChemInform Abstract: Hypervalent Bonding in One, Two, and Three Dimensions: Extending the Zintl—Klemm Concept to Nonclassical Electron-Rich Networks

Garegin A. Papoian, Roald Hoffmann

Journal:

Year:

2000

File:

PDF, 26 KB

2000

45

Free energy calculations of counterion partitioning between DNA and chloride solutions

Alexey Savelyev, Garegin A. Papoian

Journal:

Mendeleev Communications

Year:

2007

Language:

english

File:

PDF, 1.90 MB

english, 2007

46

Elimination of fast variables in chemical Langevin equations

Lan, Yueheng, Elston, Timothy C., Papoian, Garegin A.

Journal:

The Journal of Chemical Physics

Year:

2008

Language:

english

File:

PDF, 356 KB

english, 2008

47

Molecular Renormalization Group Coarse-Graining of Electrolyte Solutions: Application to Aqueous NaCl and KCl

Savelyev, Alexey, Papoian, Garegin A.

Journal:

Journal of Physical Chemistry B

Year:

2009

Language:

english

File:

PDF, 1.67 MB

english, 2009

48

Total energy partitioning within a one-electron formalism: A Hamilton population study of surface–CO interaction in the c(2×2)-CO/ Ni(100) chemisorption system

Glassey, Wingfield V., Papoian, Garegin A., Hoffmann, Roald

Journal:

The Journal of Chemical Physics

Year:

1999

Language:

english

File:

PDF, 627 KB

english, 1999

49

The Acetylation Landscape of the H4 Histone Tail: Disentangling the Interplay between the Specific and Cumulative Effects

Winogradoff, David, Echeverria, Ignacia, Potoyan, Davit A., Papoian, Garegin A.

Journal:

Journal of the American Chemical Society

Year:

2015

Language:

english

File:

PDF, 4.23 MB

english, 2015

50

Shearing of the CENP-A dimerization interface mediates plasticity in the octameric centromeric nucleosome

Winogradoff, David, Zhao, Haiqing, Dalal, Yamini, Papoian, Garegin A.

Journal:

Scientific Reports

Year:

2015

Language:

english

File:

PDF, 2.41 MB

english, 2015

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