Klauda, Jeffery B.: search on Z-Library

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1

How Do Ethanolamine Plasmalogens Contribute to Order and Structure of Neurological Membranes?

West, Ana, Zoni, Valeria, Teague, Walter E, Leonard, Alison N., Vanni, Stefano, Gawrisch, Klaus, Tristram-Nagle, Stephanie, Sachs, Jonathan N., Klauda, Jeffery B.

Journal:

Journal of Physical Chemistry B

Year:

2020

Language:

english

File:

PDF, 985 KB

english, 2020

2

Long-Range Lennard-Jones and Electrostatic Interactions in Interfaces: Application of the Isotropic Periodic Sum Method

Klauda, Jeffery B., Wu, Xiongwu, Pastor, Richard W., Brooks, Bernard R.

Journal:

Journal of Physical Chemistry B

Year:

2007

Language:

english

File:

PDF, 160 KB

english, 2007

3

Developing and Testing of Lipid Force Fields with Applications to Modeling Cellular Membranes

Leonard, Alison N., Wang, Eric, Monje-Galvan, Viviana, Klauda, Jeffery B.

Journal:

Chemical Reviews

Year:

2019

File:

PDF, 8.84 MB

2019

4

Mesoscale Phenomena in Ternary Solutions of Tertiary Butyl Alcohol, Water, and Propylene Oxide

Subramanian, Deepa, Klauda, Jeffery B., Collings, Peter J., Anisimov, Mikhail A.

Journal:

Journal of Physical Chemistry B

Year:

2014

Language:

english

File:

PDF, 2.98 MB

english, 2014

5

How Does Ethanol Affect the Stability of Simple Model Yeast Membranes?

Konas, Ryan M., Daristotle, John L., Harbor, Ndubuisi B., Klauda, Jeffery B.

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 39 KB

english, 2015

6

Critical Sequence Hotspots for Binding of Novel Coronavirus to Angiotensin Converter Enzyme as Evaluated by Molecular Simulations

Ghorbani, Mahdi, Brooks, Bernard R., Klauda, Jeffery B.

Journal:

Journal of Physical Chemistry B

Year:

2020

File:

PDF, 9.02 MB

2020

7

Gas Hydrate Structure and Pressure Predictions Based on an Updated Fugacity-Based Model with the PSRK Equation of State

Bandyopadhyay, Arpan A., Klauda, Jeffery B.

Journal:

Industrial & Engineering Chemistry Research

Year:

2011

Language:

english

File:

PDF, 870 KB

english, 2011

8

Phase behavior of clathrate hydrates: a model for single and multiple gas component hydrates

Jeffery B. Klauda, Stanley I. Sandler

Journal:

Chemical Engineering Science

Year:

2003

Language:

english

File:

PDF, 333 KB

english, 2003

9

Global Distribution of Methane Hydrate in Ocean Sediment

Klauda, Jeffery B., Sandler, Stanley I.

Journal:

Year:

2005

Language:

english

File:

PDF, 567 KB

english, 2005

10

Binding and release of cholesterol in the Osh4 protein of yeast

Rishi P. Singh, Bernard R. Brooks, Jeffery B. Klauda

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 578 KB

english, 2009

11

Update of the CHARMM All-Atom Additive Force Field for Lipids: Validation on Six Lipid Types

Klauda, Jeffery B., Venable, Richard M., Freites, J. Alfredo, O’Connor, Joseph W., Tobias, Douglas J., Mondragon-Ramirez, Carlos, Vorobyov, Igor, MacKerell, Alexander D., Pastor, Richard W.

Journal:

Journal of Physical Chemistry B

Year:

2010

Language:

english

File:

PDF, 4.36 MB

english, 2010

12

ST-analyzer: A web-based user interface for simulation trajectory analysis

Jeong, Jong Cheol, Jo, Sunhwan, Wu, Emilia L., Qi, Yifei, Monje-Galvan, Viviana, Yeom, Min Sun, Gorenstein, Lev, Chen, Feng, Klauda, Jeffery B., Im, Wonpil

Journal:

Journal of Computational Chemistry

Year:

2014

Language:

english

File:

PDF, 673 KB

english, 2014

13

Binding of A Natural Sterol to the Osh4 Protein of Yeast and Membrane Attachment

Rogaski, Brent, Klauda, Jeffery B.

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 36 KB

english, 2010

14

Atomic-Level Simulations to Probe Conformational Changes of Secondary Active Transport Proteins

Pendse, Pushkar Y., Pandit, Kunal R., Klauda, Jeffery B.

Journal:

Biophysical Journal

Year:

2012

Language:

english

File:

PDF, 80 KB

english, 2012

15

Influence of Cholesterol on Phospholipid Bilayer Structure and Dynamics

Boughter, Christopher T, Monje-Galvan, Viviana, Im, Wonpil, Klauda, Jeffery B.

Journal:

Journal of Physical Chemistry B

Year:

2016

Language:

english

File:

PDF, 2.52 MB

english, 2016

16

Engineering Escherichia coli Membrane Phospholipid Head Distribution Improves Tolerance and Production of Biorenewables

Tan, Zaigao, Khakbaz, Pouyan, Chen, Yingxi, Lombardo, Jeremy, Yoon, Jong Moon, Shanks, Jacqueline V., Klauda, Jeffery B., Jarboe, Laura R.

Journal:

Metabolic Engineering

Year:

2017

Language:

english

File:

PDF, 1.12 MB

english, 2017

17

Probing Plexin A3 Dimerization and the Importance of the Near Membrane Extracellular Residues

Khakbaz, Pouyan, Klauda, Jeffery B.

Journal:

Biophysical Journal

Year:

2018

Language:

english

File:

PDF, 46 KB

english, 2018

18

Rapid, quantitative therapeutic screening for Alzheimer's enzymes enabled by optimal signal transduction with transistors

Le, Son T., Morris, Michelle A., Cardone, Antonio, Guros, Nicholas B., Klauda, Jeffery B., Sperling, Brent A., Richter, Curt A., Pant, Harish C., Balijepalli, Arvind

Journal:

The Analyst (Royal Society of Chemistry)

Year:

2020

File:

PDF, 3.38 MB

2020

19

Membrane permeability of small molecules from unbiased molecular dynamics simulations

KrÃ¤mer, Andreas, Ghysels, An, Wang, Eric, Venable, Richard M., Klauda, Jeffery B., Brooks, Bernard R., Pastor, Richard W.

Journal:

The Journal of Chemical Physics

Year:

2020

File:

PDF, 4.32 MB

2020

20

Predictions of gas hydrate phase equilibria and amounts in natural sediment porous media

Jeffery B. Klauda, Stanley I. Sandler

Journal:

Marine and Petroleum Geology

Year:

2003

Language:

english

File:

PDF, 586 KB

english, 2003

21

THE CONCENTRATING ACTIVITY OF THE GALL-BLADDER.

Rogaski, Brent, Klauda, Jeffery B.

Journal:

Year:

1921

Language:

english

File:

PDF, 199 KB

english, 1921

22

Molecular dynamics simulations of palmitoyloleoylphosphatidylglycerol bilayers

Kang, Hojin, Klauda, Jeffery B.

Journal:

Molecular Simulation

Year:

2015

Language:

english

File:

PDF, 450 KB

english, 2015

23

Characterizing Nanopore-Polymer Interactions and Cys-loop Protein Receptor Gating

Guros, Nicholas B., Klauda, Jeffery B.

Journal:

Biophysical Journal

Year:

2016

Language:

english

File:

PDF, 63 KB

english, 2016

24

Influence of Ganglioside GM1 Concentration on Lipid Clustering and Membrane Properties and Curvature

Patel, Dhilon S., Park, Soohyung, Wu, Emilia L., Yeom, Min Sun, Widmalm, Göran, Klauda, Jeffery B., Im, Wonpil

Journal:

Biophysical Journal

Year:

2016

Language:

english

File:

PDF, 2.86 MB

english, 2016

25

Molecular Structure of the Long Periodicity Phase in the Stratum Corneum

Wang, Eric, Klauda, Jeffery B.

Journal:

Journal of the American Chemical Society

Year:

2019

Language:

english

File:

PDF, 6.10 MB

english, 2019

26

A Fugacity Model for Gas Hydrate Phase Equilibria

Klauda, Jeffery B., Sandler, Stanley I.

Journal:

Industrial & Engineering Chemistry Research

Year:

2000

Language:

english

File:

PDF, 158 KB

english, 2000

27

Molecular Dynamics and NMR Spectroscopy Studies of E. coli Lipopolysaccharide Structure and Dynamics

Wu, Emilia L., Engström, Olof, Jo, Sunhwan, Stuhlsatz, Danielle, Yeom, Min Sun, Klauda, Jeffery B., Widmalm, Göran, Im, Wonpil

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 2.60 MB

english, 2013

28

Adjacent Gauche Stabilization in Linear Alkanes: Implications for Polymer Models and Conformational Analysis

Klauda, Jeffery B., Pastor, Richard W., Brooks, Bernard R.

Journal:

Journal of Physical Chemistry B

Year:

2005

Language:

english

File:

PDF, 42 KB

english, 2005

29

CHARMM-GUI Membrane Builder toward realistic biological membrane simulations

Wu, Emilia L., Cheng, Xi, Jo, Sunhwan, Rui, Huan, Song, Kevin C., Dávila-Contreras, Eder M., Qi, Yifei, Lee, Jumin, Monje-Galvan, Viviana, Venable, Richard M., Klauda, Jeffery B., Im, Wonpil

Journal:

Journal of Computational Chemistry

Year:

2014

Language:

english

File:

PDF, 817 KB

english, 2014

30

Modeling structural transitions from the periplasmic-open state of lactose permease and interpretations of spin label experiments

Zhuang, Xiaohong, Klauda, Jeffery B.

Journal:

Biochimica et Biophysica Acta (BBA) - Biomembranes

Year:

2016

Language:

english

File:

PDF, 1.74 MB

english, 2016

31

Mannobiose‐Grafting Shifts PEI Charge and Biphasic Dependence on pH

Basu, Saswati, Venable, Richard M., Rice, Bria, Ogharandukun, Eric, Klauda, Jeffery B., Pastor, Richard W., Chandran, Preethi L.

Journal:

Macromolecular Chemistry and Physics

Year:

2019

File:

PDF, 4.23 MB

2019

32

Calculating Ethanol Permeability of Membranes through Molecular Dynamic Simulations

Ghorbani, Mahdi, Wang, Eric, Klauda, Jeffery B.

Journal:

Biophysical Journal

Year:

2019

Language:

english

File:

PDF, 43 KB

english, 2019

33

Modifying the CHARMM36 Lipid Force Field for LJ-PME Simulations

Yu, Yalun, KrÃ¤mer, Andreas, Klauda, Jeffery B., Pastor, Richard W.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 45 KB

2020

34

Influence of Ester-Modified Lipids on Bilayer Structure

Villanueva, Diana Y., Lim, Joseph B., Klauda, Jeffery B.

Journal:

Year:

2013

Language:

english

File:

PDF, 1.41 MB

english, 2013

35

CHARMM-GUI HMMM Builder for Membrane Simulations with the Highly Mobile Membrane-Mimetic Model

Qi, Yifei, Cheng, Xi, Lee, Jumin, Vermaas, Josh V., Pogorelov, Taras V., Tajkhorshid, Emad, Park, Soohyung, Klauda, Jeffery B., Im, Wonpil

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 1.96 MB

english, 2015

36

Simulations of Pure Ceramide and Ternary Lipid Mixtures as Simple Interior Stratum Corneum Models

Wang, Eric, Klauda, Jeffery B.

Journal:

Journal of Physical Chemistry B

Year:

2018

Language:

english

File:

PDF, 1.43 MB

english, 2018

37

Translocation of CPP-Cargo Protein Fusions into Candida albicans Cells and Designing for Enhanced Translocation with Simulations

Adhikari, Sayanee, Ghorbani, Mahdi, Dura, Katherine, Klauda, Jeffery B., Karlsson, Amy J.

Journal:

Biophysical Journal

Year:

2019

File:

PDF, 48 KB

2019

38

Update of the CHARMM36 United Atom Chain Model for Lipids

Yu, Yalun, Klauda, Jeffery B.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 47 KB

2020

39

CHARMM-GUI Membrane Builder for Mixed Bilayers and Its Application to Yeast Membranes

Jo, Sunhwan, Lim, Joseph B., Klauda, Jeffery B., Im, Wonpil

Journal:

Biophysical Journal

Year:

2009

Language:

english

File:

PDF, 758 KB

english, 2009

40

An ab Initio Study on the Effect of Carbon Surface Curvature and Ring Structure on N 2 (O 2 )−Carbon Intermolecular Potentials

Klauda, Jeffery B., Jiang, Jianwen, Sandler, Stanley I.

Journal:

Journal of Physical Chemistry B

Year:

2004

Language:

english

File:

PDF, 281 KB

english, 2004

41

St-Analyzer: A Web-Based User Interface for Simulation Trajectory Analysis

Jeong, Jong Cheol, Jo, Sunhwan, Wu, Emilia L, Qi, Yifei, Monje, Viviana, Yeom, Min Sun, Gorenstein, Lev, Chen, Feng, Klauda, Jeffery B., Im, Wonpil

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 45 KB

english, 2014

42

CHARMM All-Atom Additive Force Field for Sphingomyelin: Elucidation of Hydrogen Bonding and of Positive Curvature

Venable, Richard M., Sodt, Alexander J., Rogaski, Brent, Rui, Huan, Hatcher, Elizabeth, MacKerell, Alexander D., Pastor, Richard W., Klauda, Jeffery B.

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 1.49 MB

english, 2014

43

Insight into Early-Stage Unfolding of GPI-Anchored Human Prion Protein

Wu, Emilia L., Qi, Yifei, Park, Soohyung, Mallajosyula, Sairam S., MacKerell, Alexander D., Klauda, Jeffery B., Im, Wonpil

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 3.04 MB

english, 2015

44

Developing and Testing of Lipid Force Fields with Applications to Modeling Cellular Membranes

Leonard, Alison N., Wang, Eric, Monje-Galvan, Viviana, Klauda, Jeffery B.

Journal:

Chemical Reviews

Year:

2019

Language:

english

File:

PDF, 8.84 MB

english, 2019

45

Introduction of Membrane Analyzer and Updates of Membrane Builder

Cheol Jeong, Jong, Jo, Sunhwan, Song, Kevin, Cheng, Xi, Sun Lee, Hui, Klauda, Jeffery B., Im, Wonpil

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 37 KB

english, 2013

46

Characterization of Pure Lipid Bilayers using Molecular Dynamics Simulations

Davila Contreras, Eder M., Beaven, Andrew H., Klauda, Jeffery B., Im, Wonpil

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 43 KB

english, 2014

47

Studying Conformational Changes of Mhp1 using Unbiased All-Atom Molecular Simulations

Khakbaz, Pouyan, Klauda, Jeffery B.

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 44 KB

english, 2014

48

Biophysical Changes of Lipid Membranes in the Presence of Ethanol at Varying Concentrations

Konas, Ryan M., Daristotle, John L, Harbor, Ndubuisi B., Klauda, Jeffery B.

Journal:

Journal of Physical Chemistry B

Year:

2015

Language:

english

File:

PDF, 1.02 MB

english, 2015

49

Molecular Simulations of Mixed Lipid Bilayers with Sphingomyelin, Glycerophospholipids and Cholesterol

Bera, Indrani, Klauda, Jeffery B.

Journal:

Journal of Physical Chemistry B

Year:

2017

Language:

english

File:

PDF, 2.12 MB

english, 2017

50

Molecular Dynamics Simulations of Ceramide and Ceramide-Phosphatidylcholine Bilayers

Wang, Eric, Klauda, Jeffery B.

Journal:

Journal of Physical Chemistry B

Year:

2017

Language:

english

File:

PDF, 2.25 MB

english, 2017

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