Agarwal, Pratul: search on Z-Library

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1

Molten Globule of Hemoglobin Proceeds into Aggregates and Advanced Glycated End Products

Iram, Afshin, Alam, Tauqeer, Khan, Javed M., Khan, Taqi A., Khan, Rizwan H., Naeem, Aabgeena, Agarwal, Pratul K.

Journal:

Year:

2013

Language:

english

File:

PDF, 4.78 MB

english, 2013

2

A Biophysical Perspective on Enzyme Catalysis

Agarwal, Pratul K.

Journal:

Year:

2018

Language:

english

File:

PDF, 671 KB

english, 2018

3

The Dynamics of the Human Leukocyte Antigen Head Domain Modulates Its Recognition by the T-Cell Receptor

García-Guerrero, Estefanía, Pérez-Simón, José Antonio, Sánchez-Abarca, Luis Ignacio, Díaz-Moreno, Irene, De la Rosa, Miguel A., Díaz-Quintana, Antonio, Agarwal, Pratul K.

Journal:

Year:

2016

Language:

english

File:

PDF, 9.66 MB

english, 2016

4

Performance characteristics of biomolecular simulations on high-end systems with multi-core processors

Sadaf R. Alam, Pratul K. Agarwal, Jeffrey S. Vetter

Journal:

Parallel Computing

Year:

2008

Language:

english

File:

PDF, 666 KB

english, 2008

5

Evaluation of Pacific White Shrimp (Litopenaeus vannamei) Health during a Superintensive Aquaculture Growout Using NMR-Based Metabolomics

Schock, Tracey B., Duke, Jessica, Goodson, Abby, Weldon, Daryl, Brunson, Jeff, Leffler, John W., Bearden, Daniel W., Agarwal, Pratul K.

Journal:

Year:

2013

Language:

english

File:

PDF, 703 KB

english, 2013

6

[IEEE Distributed Processing Symposium (IPDPS) - Miami, FL, USA (2008.04.14-2008.04.18)] 2008 IEEE International Symposium on Parallel and Distributed Processing - Impact of multicores on large-scale molecular dynamics simulations

Alam, Sadaf R., Agarwal, Pratul K., Hampton, Scott S., Hong Ong,, Vetter, Jeffrey S.

Year:

2008

Language:

english

File:

PDF, 713 KB

english, 2008

7

Ligand Binding Enhances Millisecond Conformational Exchange in Xylanase B2 from Streptomyces lividans

Gagné, Donald, Narayanan, Chitra, Nguyen Thi, Nhung, Roux, Louise Danielle, Bernard, David N., Brunzelle, Joseph S., Couture, Jean-François, Agarwal, Pratul K., Doucet, Nicolas

Journal:

Year:

2016

Language:

english

File:

PDF, 2.62 MB

english, 2016

8

Protein Conformational Populations and Functionally Relevant Substates

Ramanathan, Arvind, Savol, Andrej, Burger, Virginia, Chennubhotla, Chakra S., Agarwal, Pratul K.

Journal:

Accounts of Chemical Research

Year:

2014

Language:

english

File:

PDF, 2.02 MB

english, 2014

9

Inhibitory Effect of Metformin and Pyridoxamine in the Formation of Early, Intermediate and Advanced Glycation End-Products

Ahmad, Saheem, Shahab, Uzma, Baig, Mohd. Hassan, Khan, Mohd. Sajid, Khan, M. Salman, Srivastava, A. K., Saeed, Mohd, Moinuddin,, Agarwal, Pratul K.

Journal:

Year:

2013

Language:

english

File:

PDF, 2.06 MB

english, 2013

10

Design of a Zinc-Finger Hydrolase with a Synthetic αββ Protein

Srivastava, Kinshuk Raj, Durani, Susheel, Agarwal, Pratul K.

Journal:

Year:

2014

Language:

english

File:

PDF, 788 KB

english, 2014

11

Low‐Barrier and Canonical Hydrogen Bonds Modulate Activity and Specificity of a Catalytic Triad

Kumar, Prashasti, Agarwal, Pratul K., Waddell, M. Brett, Mittag, Tanja, Serpersu, Engin H., Cuneo, Matthew J.

Journal:

Angewandte Chemie

Year:

2019

Language:

english

File:

PDF, 2.84 MB

english, 2019

12

Structure, dynamics, and function of the evolutionarily changing biliverdin reductase B family

Duff, Michael R, Redzic, Jasmina S, Ryan, Lucas P, Paukovich, Natasia, Zhao, Rui, Nix, Jay C, Pitts, Todd M, Agarwal, Pratul, Eisenmesser, Elan Zohar

Journal:

Journal of Biochemistry

Year:

2020

File:

PDF, 3.90 MB

2020

13

Visualizing Rev1 catalyze protein-template DNA synthesis

Weaver, Tyler M., Cortez, Luis M., Khoang, Thu H., Washington, M. Todd, Agarwal, Pratul K., Freudenthal, Bret D.

Journal:

Proceedings of the National Academy of Sciences

Year:

2020

File:

PDF, 1.98 MB

2020

14

Nuclear Quantum Effects and Enzyme Dynamics in Dihydrofolate Reductase Catalysis

Agarwal, Pratul K., Billeter, Salomon R., Hammes-Schiffer, Sharon

Journal:

Journal of Physical Chemistry B

Year:

2002

Language:

english

File:

PDF, 263 KB

english, 2002

15

Conformational Dynamics of a Ligand-Free Adenylate Kinase

Song, Hyun Deok, Zhu, Fangqiang, Agarwal, Pratul K.

Journal:

Year:

2013

Language:

english

File:

PDF, 1.70 MB

english, 2013

16

Myelin Basic Protein Phospholipid Complexation Likely Competes with Deimination in Experimental Autoimmune Encephalomyelitis Mouse Model

Valdivia, Anddre Osmar, Agarwal, Pratul K., Bhattacharya, Sanjoy K.

Journal:

Year:

2020

File:

PDF, 7.10 MB

2020

17

Cis/trans isomerization in HIV-1 capsid protein catalyzed by cyclophilin A: Insights from computational and theoretical studies

Pratul K. Agarwal

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2004

Language:

english

File:

PDF, 830 KB

english, 2004

18

Computational Studies of the Mechanism for Proton and Hydride Transfer in Liver Alcohol Dehydrogenase

Agarwal, Pratul K., Webb, Simon P., Hammes-Schiffer, Sharon

Journal:

Journal of the American Chemical Society

Year:

2000

Language:

english

File:

PDF, 173 KB

english, 2000

19

[IEEE 2008 51st IEEE International Midwest Symposium on Circuits and Systems (MWSCAS) - Knoxville, TN, USA (2008.08.10-2008.08.13)] 2008 51st Midwest Symposium on Circuits and Systems - Implementation methodology for emerging reconfigurable systems

Martin, Phillip M., Smith, Melissa C., Alam, Sadaf, Agarwal, Pratul

Year:

2008

Language:

english

File:

PDF, 533 KB

english, 2008

20

[IEEE Simulation (HPCS) - Caen, France (2010.06.28-2010.07.2)] 2010 International Conference on High Performance Computing & Simulation - Towards microsecond biological molecular dynamics simulations on hybrid processors

Hampton, Scott, Agarwal, Pratul K., Alam, Sadaf R., Crozier, Paul S.

Year:

2010

Language:

english

File:

PDF, 1.20 MB

english, 2010

21

Analysis of Adaptation Mutants in the Hemagglutinin of the Influenza A(H1N1)pdm09 Virus

Jiménez-Alberto, Alicia, Alvarado-Facundo, Esmeralda, Ribas-Aparicio, Rosa María, Castelán-Vega, Juan A., Agarwal, Pratul K.

Journal:

Year:

2013

Language:

english

File:

PDF, 1.02 MB

english, 2013

22

Protein Dynamics and Enzymatic Catalysis: Investigating the Peptidyl−Prolyl Cis−Trans Isomerization Activity of Cyclophilin A †

Agarwal, Pratul K., Geist, Al, Gorin, Andrey

Journal:

Year:

2004

Language:

english

File:

PDF, 683 KB

english, 2004

23

Event detection and sub-state discovery from biomolecular simulations using higher-order statistics: Application to enzyme adenylate kinase

Arvind Ramanathan, Andrej J. Savol, Pratul K. Agarwal, Chakra S. Chennubhotla

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2012

Language:

english

File:

PDF, 1.14 MB

english, 2012

24

Innentitelbild: Oxygen Activation at the Active Site of a Fungal Lytic Polysaccharide Monooxygenase (Angew. Chem. 3/2017)

O'Dell, William B., Agarwal, Pratul K., Meilleur, Flora

Journal:

Angewandte Chemie

Year:

2017

File:

PDF, 1.46 MB

2017

25

Oxygen Activation at the Active Site of a Fungal Lytic Polysaccharide Monooxygenase

O'Dell, William B., Agarwal, Pratul K., Meilleur, Flora

Journal:

Angewandte Chemie

Year:

2017

Language:

english

File:

PDF, 2.75 MB

english, 2017

26

Dynamics based clustering of globin family members

Tobi, Dror, Agarwal, Pratul K.

Journal:

Year:

2018

Language:

english

File:

PDF, 2.08 MB

english, 2018

27

Combining Electronic Structure Methods with the Calculation of Hydrogen Vibrational Wavefunctions: Application to Hydride Transfer in Liver Alcohol Dehydrogenase

Webb, Simon P., Agarwal, Pratul K., Hammes-Schiffer, Sharon

Journal:

Journal of Physical Chemistry B

Year:

2000

Language:

english

File:

PDF, 200 KB

english, 2000

28

Hyperelastic Material Properties of Mouse Skin under Compression

Wang, Yuxiang, Marshall, Kara L., Baba, Yoshichika, Gerling, Gregory J., Lumpkin, Ellen A., Agarwal, Pratul K.

Journal:

Year:

2013

Language:

english

File:

PDF, 987 KB

english, 2013

29

Ligand-Induced Variations in Structural and Dynamical Properties Within an Enzyme Superfamily

Narayanan, Chitra, Bernard, David N., Bafna, Khushboo, Gagné, Donald, Agarwal, Pratul K., Doucet, Nicolas

Journal:

Frontiers in Molecular Biosciences

Year:

2018

Language:

english

File:

PDF, 2.89 MB

english, 2018

30

Role of protein motions in function

Agarwal, Pratul K.

Journal:

Physics of Life Reviews

Year:

2013

Language:

english

File:

PDF, 67 KB

english, 2013

31

Molecular Dynamics Simulations to Provide Insights into Epitopes Coupled to the Soluble and Membrane-Bound MHC-II Complexes

Bello, Martiniano, Correa-Basurto, Jose, Agarwal, Pratul K.

Journal:

Year:

2013

Language:

english

File:

PDF, 3.72 MB

english, 2013

32

Comparison of the Internal Dynamics of Metalloproteases Provides New Insights on Their Function and Evolution

Carvalho, Henrique F., Roque, Ana C. A., Iranzo, Olga, Branco, Ricardo J. F., Agarwal, Pratul K.

Journal:

Year:

2015

Language:

english

File:

PDF, 1.77 MB

english, 2015

33

Enzyme dynamics: Looking beyond a single structure

Agarwal, Pratul, Bernard, David, Bafna, Khushboo, Doucet, Nicolas

Journal:

Year:

2020

File:

PDF, 2.31 MB

2020

34

Tales of Dihydrofolate Binding to R67 Dihydrofolate Reductase

Duff, Michael R., Chopra, Shaileja, Strader, Michael Brad, Agarwal, Pratul K., Howell, Elizabeth E.

Journal:

Year:

2016

Language:

english

File:

PDF, 2.99 MB

english, 2016

35

Fifty Shades of Interaction between Folate and Glycine Betaine

Bhojane, Purva P., Duff, Michael R., Bafna, Khushboo, Rimmer, Gabriella P, Agarwal, Pratul K., Howell, Elizabeth E

Journal:

Year:

2016

Language:

english

File:

PDF, 1.56 MB

english, 2016

36

Synthetic, Switchable Enzymes

Norris, Vic, Krylov, Sergey N., Agarwal, Pratul K., White, Glenn J.

Journal:

Journal of Molecular Microbiology and Biotechnology

Year:

2017

Language:

english

File:

PDF, 176 KB

english, 2017

37

Function, Structure, and Stability of Enzymes Confined in Agarose Gels

Kunkel, Jeffrey, Asuri, Prashanth, Agarwal, Pratul K.

Journal:

Year:

2014

Language:

english

File:

PDF, 302 KB

english, 2014

38

Nucleotide substrate binding characterization in human pancreatic-type ribonucleases

Bafna, Khushboo, Narayanan, Chitra, Chennubhotla, S. Chakra, Doucet, Nicolas, Agarwal, Pratul K., Fraternali, Franca

Journal:

Year:

2019

Language:

english

File:

PDF, 3.60 MB

english, 2019

39

Enzymes: An integrated view of structure, dynamics and function

Pratul K Agarwal

Journal:

Microbial Cell Factories

Year:

2006

Language:

english

File:

PDF, 2.14 MB

english, 2006

40

Inside Cover: Oxygen Activation at the Active Site of a Fungal Lytic Polysaccharide Monooxygenase (Angew. Chem. Int. Ed. 3/2017)

O'Dell, William B., Agarwal, Pratul K., Meilleur, Flora

Journal:

Angewandte Chemie International Edition

Year:

2017

File:

PDF, 1.47 MB

2017

41

Dynamic and Multi-Pharmacophore Modeling for Designing Polo-Box Domain Inhibitors

Sakkiah, Sugunadevi, Senese, Silvia, Yang, Qianfan, Lee, Keun Woo, Torres, Jorge Z., Agarwal, Pratul K.

Journal:

Year:

2014

Language:

english

File:

PDF, 1.32 MB

english, 2014

42

Application health monitoring for extreme‐scale resiliency using cooperative fault management

Agarwal, Pratul K., Naughton, Thomas, Park, Byung H., Bernholdt, David E., Hursey, Joshua J., Geist, Al

Journal:

Concurrency and Computation: Practice and Experience

Year:

2019

File:

PDF, 929 KB

2019

43

Discovering Conformational Sub-States Relevant to Protein Function

Ramanathan, Arvind, Savol, Andrej J., Langmead, Christopher J., Agarwal, Pratul K., Chennubhotla, Chakra S., Chirico, Giuseppe

Journal:

Year:

2011

Language:

english

File:

PDF, 887 KB

english, 2011

44

[ACM Press the eleventh ACM SIGPLAN symposium - New York, New York, USA (2006.03.29-2006.03.31)] Proceedings of the eleventh ACM SIGPLAN symposium on Principles and practice of parallel programming - PPoPP '06 - Performance characterization of molecular dynamics techniques for biomolecular simulations

Alam, Sadaf R., Vetter, Jeffrey S., Agarwal, Pratul K., Geist, Al

Year:

2006

Language:

english

File:

PDF, 142 KB

english, 2006

45

Engineering of Family-5 Glycoside Hydrolase (Cel5A) from an Uncultured Bacterium for Efficient Hydrolysis of Cellulosic Substrates

Telke, Amar A., Zhuang, Ningning, Ghatge, Sunil S., Lee, Sook-Hee, Ali Shah, Asad, Khan, Haji, Um, Youngsoon, Shin, Hyun-Dong, Chung, Young Ryun, Lee, Kon Ho, Kim, Seon-Won, Agarwal, Pratul K.

Journal:

Year:

2013

Language:

english

File:

PDF, 1012 KB

english, 2013

46

The Tail Wagging the Dog: Insights into Catalysis in R67 Dihydrofolate Reductase

Kamath, Ganesh, Howell, Elizabeth E., Agarwal, Pratul K.

Journal:

Year:

2010

Language:

english

File:

PDF, 4.68 MB

english, 2010

47

Biomolecular simulations on petascale: promises and challenges

Agarwal, Pratul K, Alam, Sadaf R

Journal:

Journal of Physics Conference Series

Year:

2006

Language:

english

File:

PDF, 1.34 MB

english, 2006

48

Protein Similarity Networks Reveal Relationships among Sequence, Structure, and Function within the Cupin Superfamily

Uberto, Richard, Moomaw, Ellen W., Agarwal, Pratul K.

Journal:

Year:

2013

File:

PDF, 1.40 MB

2013

49

A periplasmic binding protein dimer has a second allosteric event tied to ligand binding

Li, Le, Ghimire-Rijal, Sudipa, Lucas, Sarah L, Stanley, Christopher B., Wright, Edward, Agarwal, Pratul K., Myles, Dean A. A., Cuneo, Matthew J.

Journal:

Year:

2017

Language:

english

File:

PDF, 19.25 MB

english, 2017

50

The Mode of Action of Recombinant Mycobacterium tuberculosis Shikimate Kinase: Kinetics and Thermodynamics Analyses

Rosado, Leonardo Astolfi, Vasconcelos, Igor Bordin, Palma, Mário Sérgio, Frappier, Vincent, Najmanovich, Rafael Josef, Santos, Diógenes Santiago, Basso, Luiz Augusto, Agarwal, Pratul K.

Journal:

Year:

2013

Language:

english

File:

PDF, 522 KB

english, 2013

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