SelectedWorks - Brooke S. Lustig

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Selected Works of Brooke S. Lustig

Adjunct Professor, Department of Chemistry and the Department of Chemical Engineering

Computational/theoretical methods to characterize entropy and related effects in proteins and RNA; drug design that includes potential anti-HIV agents.

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About Brooke S. Lustig

Computational/theoretical methods to characterize entropy and related effects in proteins and RNA; drug design that includes potential anti-HIV agents.

Present	Adjunct Professor, Biomedical, Chemical, and Materials Engineering Department, San Jose State University
Institution Organization Position Type Position Title Time Period to Options Current Position Affiliate my profile with this Institution
Present	Adjunct Professor, Department of Chemistry, San Jose State University
Institution Organization Position Type Position Title Time Period to Options Current Position Affiliate my profile with this Institution

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Biochemistry and Molecular Biology

blustig@science.sjsu.edu

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Articles (15)

Prediction and confirmation of a switch-like region within the N-terminal ...

Biochemistry and Biophysics Reports (2022)

Angelina T. Huynh, Thi-Tina N. Nguyen, Carina A. Villegas, Saira Montemorso, et al.

Many proteins display conformational changes resulting from allosteric regulation. Often only a few residues are crucial in conveying these structural ...

Statistical potentials for RNA-protein interactions optimized by CMA-ES

Journal of Molecular Graphics and Modelling (2021)

Takayuki Kimura, Nobuaki Yasuo, Masakazu Sekijima and Brooke Lustig

Characterizing RNA-protein interactions remains an important endeavor, complicated by the difficulty in obtaining the relevant structures. Evaluating model structures via ...

Logistic regression models to predict solvent accessible residues using sequence- ...

Journal of Applied Crystallography (2015)

Reecha Nepal, Joanna Spencer, Guneet Bhogal, Amulya Nedunuri, et al.

A working example of relative solvent accessibility (RSA) prediction for proteins is presented. Novel logistic regression models with various qualitative ...

Novel application of query-based qualitative predictors for characterization of solvent ...

Faculty Publications, Chemistry (2011)

D Rose, R Nepal, S Gholizadeh, R Mishra, et al.

Protein sequence entropy is closely related to packing density and ...

Protein Engineering Design and Selection (2005)

H Liao, W Yeh, D Chiang, R L Jernigan, et al.

We investigated the correlation between the Shannon information entropy, ‘sequence entropy’, with respect to the local flexibility of native globular ...

Flexibility of BIV TAR-Tat: Models of peptide binding

Journal of Biomolecular Structure and Dynamics (2002)

M Hsieh, E D Collins, T Blomquist and Brooke Lustig

Biological applications of hammerhead ribozymes as anti-viral molecules

Current Medicinal Chemistry (2001)

Brooke Lustig and K.-T. Jeang

Ribozymes are catalytic RNAs that can cleave substrate RNAs in a sequence specific manner. Here we survey, in brief, the ...

RNA bulge entropies correlate with peptide binding strengths for HIV-1 ...

Nucleic Acids Research (1998)

Brooke Lustig, I Baharand and R L Jernigan

For the binding of peptides to wild-type HIV-1 and BIV TAR RNA and to mutants with bulges of various sizes, ...

RNA base-amino acid interaction strengths derived from structures and sequences

Nucleic Acids Research (1997)

Brooke Lustig, S Arora and R L Jernigan

We investigate RNA base-amino acid interactions by counting their contacts in structures and their implicit contacts in various functional sequences ...

A small modified hammerhead ribozyme and its conformational characteristics determined ...

Nucleic Acids Research (1995)

Brooke Lustig, N H Lin, S M Smith, R L Jernigan, et al.

A prototypic hammerhead ribozyme has three helices that surround an asymmetrical central core loop. We have mutagenized a hammerhead type ...

Consistencies of individual DNA base-amino acid interactions in structures and ...

Nucleic Acids Research (1995)

Brooke Lustig and R L Jernigan

Amino acid-amino acid interaction energies have been derived from crystal structure data for a number of years. Here is reported ...

Conformations of t-RNA: Base pairing and stacking

Journal of Biomolecular Structure and Dynamics (1994)

Brooke Lustig, D G Covell and R L Jernigan

The Phe t-RNA structure can be fit with one point per nucleotide to lattice models, and a fit for the ...

Secondary structure formation precedes tertiary structure in the refolding of ...

Biochimica et Biophysica Acta (1992)

Brooke Lustig and A L Fink

The kinetics of refolding of ribonuclease A were monitored by circular dichroism (CD), tyrosine fluorescence and absorbance in the −40 ...

The thermal denaturation of ribonuclease A in aqueous methanol solvents

Biochimica et Biophysica Acta (1992)

Brooke Lustig and A L Fink

Circular dichroism was used to monitor the thermal unfolding of ribonuclease A in 50% aqueous methanol. The spectrum of the ...

The effect of methanol and temperature on the kinetics of ...

FEBS Letters (1988)

A L Fink, W D Anderson, J E Hattersly and Brooke Lustig

Unfolded ribonuclease A consists of 20% fast refolding (UF) and 80% slow refolding material (US). The latter consists of at ...

Novel application of query-based qualitative predictors for characterization of solvent ...

DEXA '11 Proceedings of the 2011 22nd International Workshop on Database and Expert Systems Applications (2011)

D Rose, R Nepal, S Gholizadeh, R Mishra, et al.

Scoring DNA sequence alignment using energetics of hybridization. Proceedings of ...

Proceedings of Annual Meeting of American Institute of Chemical Engineers T2/555b (2003)

D S Wander, F Yang, M McNeil and Brooke Lustig

Predicting Switch-Like Behavior in Proteins Using Logistic Regression on Sequence-Based ...

Benjamin Strauss

Ligands can bind at specific protein locations, inducing conformational changes such as those involving secondary structure. Identifying these possible switches ...

Computational Models Exploring the Role of Flexibility in Binding Tat ...

Viral-encoded regulatory proteins interacting with RNA target sequences control the gene expression of lentiviruses, notably the human immunodeficiency virus (HIV) ...

Application of query-based qualitative descriptors in conjunction with protein sequence ...

Characterization of relative solvent accessibility (RSA) plays a major role in classifying a given protein residue as being on the ...

Exploring the viability of protein structure prediction using sequence entropy

Shalini Potluri

Determination of the structure of a protein from the sequence of amino acids has been a major goal in computational ...

Characterization of protein residue surface accessibility using sequence homology

Radhika Pallavi Mishra

Residues present on the surface of the proteins are involved in a number of functions, especially in ligand-protein interactions, that ...

Alignment shift analysis using hybridization energy rules

This study seeks to develop a new tool for sequence alignment search using a possible relationship between hybridization energy values, ...

RNA structure energies applied to genome sequence search

Davinderpal S. Wander

This research was mainly concerned with the feasibility of the possible use of RNA structure energies in genome sequence search. ...

Detailed analysis of protein sequence entropy, hydrophobicity, and flexibility

Complete understanding of the connection between protein structure and protein sequence has been a major goal in bioinformatics. A strong ...