Terry Lybrand: search on Z-Library

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1

MD display: An interactive graphics program for visualization of molecular dynamics trajectories

Timothy J. Callahan, Eric Swanson, Terry P. Lybrand

Journal:

Journal of Molecular Graphics

Year:

1996

Language:

english

File:

PDF, 282 KB

english, 1996

2

Reply to: ‘‘Comment on ‘Water–water and water–ion potential functions including terms for many-body effects,’ T. P. Lybrand and P. Kollman, J. Chem. Phys. 83, 2923 (1985) and on ‘Calculation of free energy changes in ion–water clusters using nonadditive potential and the Monte Carlo methods,’ P. Cieplak, T. P. Lybrand, and P. Kollman, J. Chem. Phys. 86, 6393 (1987)’’

Kollman, Peter, Lybrand, Terry, Cieplak, Piotr

Journal:

The Journal of Chemical Physics

Year:

1988

Language:

english

File:

PDF, 307 KB

english, 1988

3

Water–water and water–ion potential functions including terms for many body effects

Lybrand, Terry P., Kollman, Peter A.

Journal:

The Journal of Chemical Physics

Year:

1985

Language:

english

File:

PDF, 1.24 MB

english, 1985

4

Staggered Mesh Ewald: An Extension of the Smooth Particle-Mesh Ewald Method Adding Great Versatility

Cerutti, David S., Duke, Robert E., Darden, Thomas A., Lybrand, Terry P.

Journal:

Journal of Chemical Theory and Computation

Year:

2009

Language:

english

File:

PDF, 1.43 MB

english, 2009

5

Dynamics of the Streptavidin−Biotin Complex in Solution and in Its Crystal Lattice: Distinct Behavior Revealed by Molecular Simulations

Cerutti, David S., Trong, Isolde Le, Stenkamp, Ronald E., Lybrand, Terry P.

Journal:

Journal of Physical Chemistry B

Year:

2009

Language:

english

File:

PDF, 5.11 MB

english, 2009

6

Calculation of free energy changes in ion–water clusters using nonadditive potentials and the Monte Carlo method

Cieplak, Piotr, Lybrand, Terry P., Kollman, Peter A.

Journal:

The Journal of Chemical Physics

Year:

1987

Language:

english

File:

PDF, 1.06 MB

english, 1987

7

Early mechanistic events in biotin dissociation from streptavidin

Hyre, David E., Amon, Lynn M., Penzotti, Julie E., Trong, Isolde Le, Stenkamp, Ronald E., Lybrand, Terry P., Stayton, Patrick S.

Journal:

Natural Structural Biology

Year:

2002

Language:

english

File:

PDF, 2.27 MB

english, 2002

8

Simulation of Nitroxide Electron Paramagnetic Resonance Spectra from Brownian Trajectories and Molecular Dynamics Simulations

DeSensi, Susan C., Rangel, David P., Beth, Albert H., Lybrand, Terry P., Hustedt, Eric J.

Journal:

Biophysical Journal

Year:

2008

Language:

english

File:

PDF, 651 KB

english, 2008

9

TagDock: An Efficient Rigid Body Docking Algorithm for Oligomeric Protein Complex Model Construction and Experiment Planning

Smith, Jarrod A., Edwards, Sarah J., Moth, Christopher W., Lybrand, Terry P.

Journal:

Year:

2013

Language:

english

File:

PDF, 303 KB

english, 2013

10

Molecular recognition in nonaqueous solvents: sodium ion, potassium ion, and 18-crown-6 in methanol

Mazor, Michael H., McCammon, J. Andrew, Lybrand, Terry P.

Journal:

Journal of the American Chemical Society

Year:

1989

Language:

english

File:

PDF, 233 KB

english, 1989

11

Modelling the Interactions of Equinatoxin II with Micelles

Weber, Daniel, Yao, Shenggen, Anderluh, Gregor, Lybrand, Terry P., Downton, Matthew T., Wagner, John, Separovic, Frances

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 42 KB

english, 2014

12

A molecular mechanical study of complexes formed between 4-nitroquinoline-N-oxide and dinucleoside phosphates

Lybrand, Terry, Dearing, Andrew, Weiner, Paul, Kollman, Peter

Journal:

Nucleic Acids Research

Year:

1981

Language:

english

File:

PDF, 753 KB

english, 1981

13

Molecular Models for Cholecystokinin-A Receptor

Eric S. Dawson, Randel M. Henne, Laurence J. Miller, Terry P. Lybrand

Journal:

Basic & Clinical Pharmacology & Toxicology

Year:

2002

Language:

english

File:

PDF, 83 KB

english, 2002

14

Hydration of chloride and bromide anions: determination of relative free energy by computer simulation

Lybrand, Terry P., Ghosh, Indira, McCammon, J. Andrew

Journal:

Journal of the American Chemical Society

Year:

1985

Language:

english

File:

PDF, 272 KB

english, 1985

15

Modelling the Interactions of Equinatoxin II with Micelles

Weber, Daniel, Yao, Shenggen, Anderluh, Gregor, Lybrand, Terry, Downton, Matthew, Wagner, John, Separovic, Frances

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 120 KB

english, 2014

16

A Combined 2D-NMR and Molecular Dynamics Analysis of the Structure of the Actinomycin D: d(ATGCAT) 2 Complex

Creighton, Steve, Rudolph, Barbara, Lybrand, Terry, Singh, U. C., Shafer, Richard, Brown, Stephen, Kollman, Peter, Case, David A., Andrea, Tariq

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

1989

Language:

english

File:

PDF, 1.90 MB

english, 1989

17

Chloroplast genome sequencing analysis ofHeterosigma akashiwoCCMP452 (West Atlantic) and NIES293 (West Pacific) strains

Rose Ann Cattolico, Michael A Jacobs, Yang Zhou, Jean Chang, Melinda Duplessis, Terry Lybrand, John McKay, Han Chuan Ong, Elizabeth Sims, Gabrielle Rocap

Journal:

Year:

2008

Language:

english

File:

PDF, 1.10 MB

english, 2008

18

Active Site of Bee Venom Phospholipase A 2 : The Role of Histidine-34, Aspartate-64 and Tyrosine-87 †

Annand, Robert R., Kontoyianni, Maria, Penzotti, Julie E., Dudler, Thomas, Lybrand, Terry P., Gelb, Michael H.

Journal:

Year:

1996

Language:

english

File:

PDF, 466 KB

english, 1996

19

Stereoselective Binding of Indomethacin Ethanolamide Derivatives to Cyclooxygenase-1

Moth, Christopher W., Prusakiewicz, Jeffrey J., Marnett, Larry J., Lybrand, Terry P.

Journal:

Journal of Medicinal Chemistry

Year:

2005

Language:

english

File:

PDF, 632 KB

english, 2005

20

Characterization of the Lipid-Binding Site of Equinatoxin II by NMR and Molecular Dynamics Simulation

Weber, Daniel K., Yao, Shenggen, Rojko, Nejc, Anderluh, Gregor, Lybrand, Terry P., Downton, Matthew T., Wagner, John, Separovic, Frances

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 1.81 MB

english, 2015

21

Molecular mechanics simulations on covalent complexes between polycyclic carcinogens and B-DNA

Rao, Shashidhar N., Lybrand, Terry, Michaud, Dennis, Jerina, D.M., Kollman, Peter A.

Journal:

Year:

1989

Language:

english

File:

PDF, 1.07 MB

english, 1989

22

Diagnostic cross-linking of paired cysteine pairs demonstrates homologous structures for two chemoreceptor domains with low sequence identity

Wing-Cheung Lai, Megan L. Peach, Terry P. Lybrand, Gerald L. Hazelbauer

Journal:

Protein Science

Year:

2006

Language:

english

File:

PDF, 575 KB

english, 2006

23

Three-Dimensional Models for β-Adrenergic Receptor Complexes with Agonists and Antagonists

Furse, Kristina E., Lybrand, Terry P.

Journal:

Journal of Medicinal Chemistry

Year:

2003

Language:

english

File:

PDF, 490 KB

english, 2003

24

Second-Contact Shell Mutation Diminishes Streptavidin–Biotin Binding Affinity through Transmitted Effects on Equilibrium Dynamics

Baugh, Loren, Le Trong, Isolde, Cerutti, David S., Mehta, Nital, Gülich, Susanne, Stayton, Patrick S., Stenkamp, Ronald E., Lybrand, Terry P.

Journal:

Year:

2012

Language:

english

File:

PDF, 1.74 MB

english, 2012

25

A Comparison of Perturbation Methods and Poisson-Boltzmann Electrostatics Calculations for Estimation of Relative Solvation Free Energies

Ewing, Todd J. A., Lybrand, Terry P.

Journal:

Journal of Physical Chemistry

Year:

1994

Language:

english

File:

PDF, 484 KB

english, 1994

26

Structural consequences of cutting a binding loop: two circularly permuted variants of streptavidin

Le Trong, Isolde, Chu, Vano, Xing, Yi, Lybrand, Terry P., Stayton, Patrick S., Stenkamp, Ronald E.

Journal:

Acta Crystallographica Section D Biological Crystallography

Year:

2013

Language:

english

File:

PDF, 719 KB

english, 2013

27

Structure of the CDB3 - ankD34 Complex from Site - Directed Spin - Labeling Studies

Kim, Sunghoon, Hustedt, Eric J., Brandon, Suzanne, Cobb, Charles E., Moth, Christopher W., Parry, Christian S., Lybrand, Terry P., Beth, Albert H.

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 37 KB

english, 2010

28

PVM-AMBER: A parallel implementation of the AMBER molecular mechanics package for workstation clusters

Eric Swanson, Terry P. Lybrand

Journal:

Journal of Computational Chemistry

Year:

1995

Language:

english

File:

PDF, 966 KB

english, 1995

29

Molecular modeling of flexible arm-mediated interactions between bacterial chemoreceptors and their modification enzyme

Usha K. Muppirala, Susan Desensi, Terry P. Lybrand, Gerald L. Hazelbauer, Zhijun Li

Journal:

Protein Science

Year:

2009

Language:

english

File:

PDF, 1022 KB

english, 2009

30

Transmembrane Segment Peptides Can Disrupt Cholecystokinin Receptor Oligomerization without affecting Receptor Function †

Harikumar, Kaleeckal G., Dong, Maoqing, Cheng, Zhijie, Pinon, Delia I., Lybrand, Terry P., Miller, Laurence J.

Journal:

Year:

2006

Language:

english

File:

PDF, 576 KB

english, 2006

31

Distance Geometry Protocol to Generate Conformations of Natural Products to Structurally Interpret Ion Mobility-Mass Spectrometry Collision Cross Sections

Stow, Sarah M., Goodwin, Cody R., Kliman, Michal, Bachmann, Brian O., McLean, John A., Lybrand, Terry P.

Journal:

Journal of Physical Chemistry B

Year:

2014

Language:

english

File:

PDF, 2.35 MB

english, 2014

32

Streptavidin–biotin binding energetics

Patrick S Stayton, Stefanie Freitag, Lisa A Klumb, Ashutosh Chilkoti, Vano Chu, Julie E Penzotti, Richard To, David Hyre, Isolde Le Trong, Terry P Lybrand, Ronald E Stenkamp

Journal:

Biomolecular Engineering

Year:

1999

Language:

english

File:

PDF, 809 KB

english, 1999

33

Computer simulation study of the binding of an antiviral agent to a sensitive and a resistant human rhinovirus

Terry P. Lybrand, J. Andrew McCammon

Journal:

Journal of Computer-Aided Molecular Design

Year:

1989

Language:

english

File:

PDF, 381 KB

english, 1989

34

Molecular Dynamics Simulation of Homo-DNA: The Role of Crystal Packing in Duplex Conformation

Sheehan, Jonathan H., Smith, Jarrod A., Pallan, Pradeep S., Lybrand, Terry P., Egli, Martin

Journal:

Year:

2019

File:

PDF, 6.38 MB

2019

35

Calculation of the EPR Spectrum of a Small Nitroxide from Molecular Dynamics Simulations

Kazmier, Kelli N., Lybrand, Terry P., Hustedt, Eric J.

Journal:

Biophysical Journal

Year:

2009

Language:

english

File:

PDF, 74 KB

english, 2009

36

Novel Benzodiazepine Photoaffinity Probe Stereoselectively Labels a Site Deep within the Membrane-Spanning Domain of the Cholecystokinin Receptor

Hadac, Elizabeth M., Dawson, Eric S., Darrow, James W., Sugg, Elizabeth E., Lybrand, Terry P., Miller, Laurence J.

Journal:

Journal of Medicinal Chemistry

Year:

2006

Language:

english

File:

PDF, 688 KB

english, 2006

37

Molecular Dynamics Simulations of Arachidonic Acid Complexes with COX-1 and COX-2: Insights into Equilibrium Behavior †

Furse, Kristina E., Pratt, Derek A., Porter, Ned A., Lybrand, Terry P.

Journal:

Year:

2006

Language:

english

File:

PDF, 1.92 MB

english, 2006

38

Use of T cell receptor/HLA-DRB1*04 molecular modeling to predict site-specific interactions for the DR shared epitope associated with rheumatoid arthritis

Julie E. Penzotti, Gerald T. Nepom, Terry P. Lybrand

Journal:

Arthritis & Rheumatism

Year:

1997

Language:

english

File:

PDF, 1.23 MB

english, 1997

39

A Structural Model for TCR Recognition of the HLA Class II Shared Epitope Sequence Implicated in Susceptibility to Rheumatoid Arthritis

Julie E. Penzotti, Derek Doherty, Terry P. Lybrand, Gerald T. Nepom

Journal:

Journal of Autoimmunity

Year:

1996

Language:

english

File:

PDF, 188 KB

english, 1996

40

A Structural Snapshot of an Intermediate on the Streptavidin-Biotin Dissociation Pathway

Stefanie Freitag, Vano Chu, Julie E. Penzotti, Lisa A. Klumb, Richard To, David Hyre, Isolde Le Trong, Terry P. Lybrand, Ronald E. Stenkamp and Patrick S. Stayton

Journal:

Proceedings of the National Academy of Sciences

Year:

1999

Language:

english

File:

PDF, 1.36 MB

english, 1999

41

Interaction among Four Residues Distributed through the Secretin Pharmacophore and a Focused Region of the Secretin Receptor Amino Terminus

Dong, Maoqing, Zang, Mengwei, Pinon, Delia I., Li, Zhijun, Lybrand, Terry P., Miller, Laurence J.

Journal:

Molecular Endocrinology

Year:

2002

Language:

english

File:

PDF, 447 KB

english, 2002

42

Recognition of altered self major histocompatibility complex molecules modulated by specific peptide interactions

Gerald T. Nepom, Dawei Ou, Terry P. Lybrand, Carol Deweese, Mary Ellen Domeier, Jane H. Buckner, Leslie A. Mitchell, Aubrey J. Tingle

Journal:

European Journal of Immunology

Year:

1996

Language:

english

File:

PDF, 527 KB

english, 1996

43

Sulindac Derivatives That Activate the Peroxisome Proliferator-activated Receptor γ but Lack Cyclooxygenase Inhibition

Felts, Andrew S., Siegel, Brianna S., Young, Shiu M., Moth, Christopher W., Lybrand, Terry P., Dannenberg, Andrew J., Marnett, Lawrence J., Subbaramaiah, Kotha

Journal:

Journal of Medicinal Chemistry

Year:

2008

Language:

english

File:

PDF, 985 KB

english, 2008

44

Molecular mechanical calculations on the interaction of ethidium cation with double-helical DNA

Terry Lybrand, Peter Kollman

Journal:

Year:

1985

Language:

english

File:

PDF, 1014 KB

english, 1985

45

Ligand—protein docking and rational drug design

Terry P Lybrand

Journal:

Current Opinion in Structural Biology

Year:

1995

Language:

english

File:

PDF, 524 KB

english, 1995

46

Ionic Association in Water: From Atoms to Enzymes

J. ANDREW McCAMMON, OMAR A. KARIM, TERRY P. LYBRAND, CHUNG F. WONG

Journal:

Annals of the New York Academy of Sciences

Year:

1986

Language:

english

File:

PDF, 623 KB

english, 1986

47

Automated Structure Refinement for a Protein Heterodimer Complex Using Limited EPR Spectroscopic Data and a Rigid-Body Docking Algorithm: A Three-Dimensional Model for an Ankyrin-CDB3 Complex

Edwards, Sarah J., Moth, Christopher W., Kim, Sunghoon, Brandon, Suzanne, Zhou, Zheng, Cobb, Charles E., Hustedt, Eric J., Beth, Albert H., Smith, Jarrod A., Lybrand, Terry P.

Journal:

Journal of Physical Chemistry B

Year:

2014

Language:

english

File:

PDF, 4.52 MB

english, 2014

48

A Molecular Model of Myelin Oligodendrocyte Glycoprotein

Peter Hjelmström, Julie E. Penzotti, Randal M. Henne, Terry P. Lybrand

Journal:

Journal of Neurochemistry

Year:

1998

Language:

english

File:

PDF, 1008 KB

english, 1998

49

Three-dimensional models for integral membrane proteins: Possibilities and pitfalls

Maria Kontoyianni, Terry P. Lybrand

Journal:

Perspectives in Drug Discovery and Design

Year:

1993

Language:

english

File:

PDF, 1.82 MB

english, 1993

50

A Vulnerability in Popular Molecular Dynamics Packages Concerning Langevin and Andersen Dynamics

Cerutti, David S., Duke, Robert, Freddolino, Peter L., Fan, Hao, Lybrand, Terry P.

Journal:

Journal of Chemical Theory and Computation

Year:

2008

Language:

english

File:

PDF, 1.35 MB

english, 2008

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