BARRY HONIG: search on Z-Library

The world's largest scientific articles store. 70,000,000+ articles for free.

Don't use scam websites

1

On the nature of cavities on protein surfaces: Application to the identification of drug-binding sites

Murad Nayal, Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2006

Language:

english

File:

PDF, 570 KB

english, 2006

2

A Structure-Informed Atlas of Human-Virus Interactions

Lasso, Gorka, Mayer, Sandra V., Winkelmann, Evandro R., Chu, Tim, Elliot, Oliver, Patino-Galindo, Juan Angel, Park, Kernyu, Rabadan, Raul, Honig, Barry, Shapira, Sagi D.

Journal:

Year:

2019

Language:

english

File:

PDF, 4.61 MB

english, 2019

3

A rapid finite difference algorithm, utilizing successive over-relaxation to solve the Poisson–Boltzmann equation

Anthony Nicholls, Barry Honig

Journal:

Journal of Computational Chemistry

Year:

1991

Language:

english

File:

PDF, 1.08 MB

english, 1991

4

Calculation of the total electrostatic energy of a macromolecular system: Solvation energies, binding energies, and conformational analysis

Michael K. Gilson, Dr. Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1988

Language:

english

File:

PDF, 1.21 MB

english, 1988

5

Implications of Torsional Potential of Retinal Isomers for Visual Excitation

HONIG, BARRY, KARPLUS, MARTIN

Journal:

Year:

1971

File:

PDF, 310 KB

1971

6

An integrated approach to the analysis and modeling of protein sequences and structures. I. Protein structural alignment and a quantitative measure for protein structural distance

An-Suei Yang, Barry Honig

Journal:

Journal of Molecular Biology

Year:

2000

Language:

english

File:

PDF, 550 KB

english, 2000

7

Protein Structure Prediction: Inroads to Biology

Donald Petrey, Barry Honig

Journal:

Year:

2005

Language:

english

File:

PDF, 434 KB

english, 2005

8

Origins of Specificity in Protein-DNA Recognition

Rohs, Remo, Jin, Xiangshu, West, Sean M., Joshi, Rohit, Honig, Barry, Mann, Richard S.

Journal:

Annual Review of Biochemistry

Year:

2010

Language:

english

File:

PDF, 1.49 MB

english, 2010

9

On the calculation of binding free energies using continuum methods: Application to MHC class I protein-peptide interactions

Nicolas Froloff, Andreas Windemuth, Barry Honig

Journal:

Protein Science

Year:

1997

Language:

english

File:

PDF, 3.03 MB

english, 1997

10

An assessment of the accuracy of methods for predicting hydrogen positions in protein structures

Lucy R. Forrest, Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 876 KB

english, 2005

11

Protein folding and association: Insights from the interfacial and thermodynamic properties of hydrocarbons

Anthony Nicholls, Kim A. Sharp, Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1991

Language:

english

File:

PDF, 1.45 MB

english, 1991

12

Calculation of electrostatic potentials in an enzyme active site

Gilson, Michael K., Honig, Barry H.

Journal:

Year:

1987

File:

PDF, 392 KB

1987

13

On the pH Dependence of Protein Stability

An-Suei Yang, Barry Honig

Journal:

Journal of Molecular Biology

Year:

1993

File:

PDF, 937 KB

1993

14

Free energy determinants of tertiary structure and the evaluation of protein models

Donald Petrey, Barry Honig

Journal:

Protein Science

Year:

2000

Language:

english

File:

PDF, 1.81 MB

english, 2000

15

Electrostatic aspects of protein–protein interactions

Felix B Sheinerman, Raquel Norel, Barry Honig

Journal:

Current Opinion in Structural Biology

Year:

2000

Language:

english

File:

PDF, 88 KB

english, 2000

16

An integrated approach to the analysis and modeling of protein sequences and structures. III. A comparative study of sequence conservation in protein structural families using multiple structural alignments

An-Suei Yang, Barry Honig

Journal:

Journal of Molecular Biology

Year:

2000

Language:

english

File:

PDF, 2.07 MB

english, 2000

17

The SufE Sulfur-acceptor Protein Contains a Conserved Core Structure that Mediates Interdomain Interactions in a Variety of Redox Protein Complexes

Sharon Goldsmith-Fischman, Alexandre Kuzin, William C. Edstrom, Jordi Benach, Ritu Shastry, Rong Xiao, Thomas B. Acton, Barry Honig, Gaetano T. Montelione, John F. Hunt

Journal:

Journal of Molecular Biology

Year:

2004

Language:

english

File:

PDF, 3.03 MB

english, 2004

18

Conformational Flexibility and Protein Folding: Rigid Structural Fragments Connected by Flexible Joints in Subtilisin BPN

Barry Honig, Alak Ray and Cyrus Levinthal

Journal:

Proceedings of the National Academy of Sciences

Year:

1976

Language:

english

File:

PDF, 1.30 MB

english, 1976

19

Single-Cell Identity Generated by Combinatorial Homophilic Interactions between α, β, and γ Protocadherins

Thu, Chan Aye, Chen, Weisheng V., Rubinstein, Rotem, Chevee, Maxime, Wolcott, Holly N., Felsovalyi, Klara O., Tapia, Juan Carlos, Shapiro, Lawrence, Honig, Barry, Maniatis, Tom

Journal:

Year:

2014

Language:

english

File:

PDF, 5.90 MB

english, 2014

20

Theoretical Studies of Two-Photon Absorption Processes. II. Model Calculations

Journal:

The Journal of Chemical Physics

Year:

1967

Language:

english

File:

PDF, 669 KB

english, 1967

21

Nectin ectodomain structures reveal a canonical adhesive interface

Harrison, Oliver J, Vendome, Jeremie, Brasch, Julia, Jin, Xiangshu, Hong, Soonjin, Katsamba, Phinikoula S, Ahlsen, Goran, Troyanovsky, Regina B, Troyanovsky, Sergey M, Honig, Barry, Shapiro, Lawrence

Journal:

Nature Structural and Molecular Biology

Year:

2012

Language:

english

File:

PDF, 1.73 MB

english, 2012

22

Transforming binding affinities from three dimensions to two with application to cadherin clustering

Wu, Yinghao, Vendome, Jeremie, Shapiro, Lawrence, Ben-Shaul, Avinoam, Honig, Barry

Journal:

Year:

2011

Language:

english

File:

PDF, 999 KB

english, 2011

23

Cis-trans isomerization in the photochemistry of vision

Rosenfeld, T., Honig, Barry, Ottolenghi, M., Hurley, James, Ebrey, T. G.

Journal:

Pure & Applied Chemistry

Year:

1977

Language:

english

File:

PDF, 669 KB

english, 1977

24

Adhesion Protein Structure, Molecular Affinities, and Principles of Cell-Cell Recognition

Honig, Barry, Shapiro, Lawrence

Journal:

Year:

2020

File:

PDF, 4.01 MB

2020

25

Sequence to structure alignment in comparative modeling using PrISM

An-Suei Yang, Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 304 KB

english, 1999

26

The dielectric constant of a folded protein

Michael K. Gilson, Barry H. Honig

Journal:

Year:

1986

Language:

english

File:

PDF, 1.44 MB

english, 1986

27

The electrostatic potential of B-DNA

B. Jayaram, Kim A. Sharp, Barry Honig

Journal:

Year:

1989

Language:

english

File:

PDF, 1.16 MB

english, 1989

28

The electrostatic contribution to DNA base-stacking interactions

Richard A. Friedman, Barry Honig

Journal:

Year:

1992

Language:

english

File:

PDF, 1.17 MB

english, 1992

29

Salt effects on polyelectrolyte–ligand binding: Comparison of Poisson–Boltzmann, and limiting law/counterion binding models

Kim A. Sharp, Richard A. Friedman, Vinod Misra, Jonathan Hecht, Barry Honig

Journal:

Year:

1995

Language:

english

File:

PDF, 1.56 MB

english, 1995

30

Rapid grid-based construction of the molecular surface and the use of induced surface charge to calculate reaction field energies: Applications to the molecular systems and geometric objects

Walter Rocchia, Sundaram Sridharan, Anthony Nicholls, Emil Alexov, Alessandro Chiabrera, Barry Honig

Journal:

Journal of Computational Chemistry

Year:

2002

Language:

english

File:

PDF, 210 KB

english, 2002

31

Calculating the electrostatic potential of molecules in solution: Method and error assessment

Michael K. Gilson, Kim A. Sharp, Barry H. Honig

Journal:

Journal of Computational Chemistry

Year:

1988

Language:

english

File:

PDF, 795 KB

english, 1988

32

The fast multipole boundary element method for molecular electrostatics: An optimal approach for large systems

Ranganathan Bharadwaj, Andreas Windemuth, S. Sridharan, Barry Honig, Anthony Nicholls

Journal:

Journal of Computational Chemistry

Year:

1995

Language:

english

File:

PDF, 1.45 MB

english, 1995

33

Design principles for active transport systems

Barry Honig, Wilfred D. Stein

Journal:

Journal of Theoretical Biology

Year:

1978

Language:

english

File:

PDF, 432 KB

english, 1978

34

Correlating solvation free energies and surface tensions of hydrocarbon solutes

Doree Sitkoff, Kim A. Sharp, Barry Honig

Journal:

Biophysical Chemistry

Year:

1994

Language:

english

File:

PDF, 1.13 MB

english, 1994

35

Protein structure prediction

Bissan Al-Lazikani, Joon Jung, Zhexin Xiang, Barry Honig

Journal:

Current Opinion in Chemical Biology

Year:

2001

Language:

english

File:

PDF, 64 KB

english, 2001

36

NMR structure of the hypothetical protein AQ-1857 encoded by the Y157 gene from Aquifex aeolicus reveals a novel protein fold

Duanxiang Xu, Gaohua Liu, Rong Xiao, Tom Acton, Sharon Goldsmith-Fischman, Barry Honig, Gaetano T. Montelione, Thomas Szyperski

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2004

Language:

english

File:

PDF, 115 KB

english, 2004

37

Crystal structures of MTH1187 and its yeast ortholog YBL001c

Xiao Tao, Reza Khayat, Dinesh Christendat, Alexei Savchenko, Xiaohui Xu, Sharon Goldsmith-Fischman, Barry Honig, Aled Edwards, Cheryl H. Arrowsmith, Liang Tong

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 190 KB

english, 2003

38

A hierarchical approach to all-atom protein loop prediction

Matthew P. Jacobson, David L. Pincus, Chaya S. Rapp, Tyler J.F. Day, Barry Honig, David E. Shaw, Richard A. Friesner

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2004

Language:

english

File:

PDF, 454 KB

english, 2004

39

NMR structure of the hypothetical protein NMA1147 from Neisseria meningitidis Reveals a distinct 5-helix bundle

Gaohua Liu, Dinesh K. Sukumaran, Duanxiang Xu, Yiwen Chiang, Thomas Acton, Sharon Goldsmith-Fischman, Barry Honig, Gaetano T. Montelione, Thomas Szyperski

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2004

Language:

english

File:

PDF, 165 KB

english, 2004

40

NMR structure of the 18 kDa protein CC1736 from Caulobacter crescentus identifies a member of the “START” domain superfamily and suggests residues mediating substrate specificity

Yang Shen, Sharon Goldsmith-Fischman, Hanudatta S. Atreya, Thomas Acton, LiChung Ma, Rong Xiao, Barry Honig, Gaetano T. Montelione, Thomas Szyperski

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 169 KB

english, 2005

41

NMR structure of protein PA2021 from Pseudomonas aeruginosa

Yu-Chieh Lin, Gaohua Liu, Yang Shen, Claudia Bertonati, Adelinda Yee, Barry Honig, Cheryl H. Arrowsmith, Thomas Szyperski

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2006

Language:

english

File:

PDF, 135 KB

english, 2006

42

Structural refinement of protein segments containing secondary structure elements: Local sampling, knowledge-based potentials, and clustering

Jiang Zhu, Li Xie, Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2006

Language:

english

File:

PDF, 850 KB

english, 2006

43

Prediction of side-chain conformations on protein surfaces

Zhexin Xiang, Peter J. Steinbach, Matthew P. Jacobson, Richard A. Friesner, Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 296 KB

english, 2007

44

NMR structure of protein yjbR from Escherichia coli reveals ‘double-wing’ DNA binding motif

Kiran Kumar Singarapu, Gaohua Liu, Rong Xiao, Claudia Bertonati, Barry Honig, Gaetano T. Montelione, Thomas Szyperski

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 233 KB

english, 2007

45

Loop modeling: Sampling, filtering, and scoring

Cinque S. Soto, Marc Fasnacht, Jiang Zhu, Lucy Forrest, Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2008

Language:

english

File:

PDF, 215 KB

english, 2008

46

Refining homology models by combining replica-exchange molecular dynamics and statistical potentials

Jiang Zhu, Hao Fan, Xavier Periole, Barry Honig, Alan E. Mark

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2008

Language:

english

File:

PDF, 953 KB

english, 2008

47

Structural elucidation of the Cys-His-Glu-Asn proteolytic relay in the secreted CHAP domain enzyme from the human pathogen Staphylococcus saprophyticus

Paolo Rossi, James M. Aramini, Rong Xiao, Chen X. Chen, Chioma Nwosu, Leah A. Owens, Melissa Maglaqui, Rajesh Nair, Markus Fischer, Thomas B. Acton, Barry Honig, Burkhard Rost, Gaetano T. Montelione

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 226 KB

english, 2009

48

Solution NMR structures of proteins VPA0419 from Vibrio parahaemolyticus and yiiS from Shigella flexneri provide structural coverage for protein domain family PFAM 04175

Kiran Kumar Singarapu, Jeffrey L. Mills, Rong Xiao, Thomas Acton, Marco Punta, Markus Fischer, Barry Honig, Burkhard Rost, Gaetano T. Montelione, Thomas Szyperski

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2010

Language:

english

File:

PDF, 164 KB

english, 2010

49

Focusing of electric fields in the active site of Cu-Zn superoxide dismutase: Effects of ionic strength and amino-acid modification

Dr. Isaac Klapper, Ray Hagstrom, Richard Fine, Kim Sharp, Dr. Barry Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1986

Language:

english

File:

PDF, 1.47 MB

english, 1986

50

Energetics of charge–charge interactions in proteins

Michael K. Gilson, Dr. Barry H. Honig

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1988

Language:

english

File:

PDF, 1.88 MB

english, 1988