Yuk Y Sham

1995 …2023
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Research Output 1995 2019

2019

Modeling and Simulation of hGAT1: A Mechanistic Investigation of the GABA Transport Process

Zafar, S., Nguyen, M. E., Muthyala, R., Jabeen, I. & Sham, Y. Y., Jan 1 2019, In : Computational and Structural Biotechnology Journal. 17, p. 61-69 9 p.

Research output: Contribution to journalArticle

gamma-Aminobutyric Acid
Ions
Conformations
Binding sites
Sodium

Peptide/Receptor Co-evolution Explains the Lipolytic Function of the Neuropeptide TLQP-21

Sahu, B. S., Rodriguez, P., Nguyen, M. E., Han, R., Cero, C., Razzoli, M., Piaggi, P., Laskowski, L. J., Pavlicev, M., Muglia, L., Mahata, S. K., O'Grady, S. M., McCorvy, J. D., Baier, L. J., Sham, Y. Y. & Bartolomucci, A., Sep 3 2019, In : Cell reports. 28, 10, p. 2567-2580.e6

Research output: Contribution to journalArticle

Open Access
Complement C3a
Drug therapy
Peptide Receptors
Neuropeptides
Molecular dynamics
2018
2 Citations (Scopus)

An Indole-Chalcone Inhibits Multidrug-Resistant Cancer Cell Growth by Targeting Microtubules

Cong, H., Zhao, X., Castle, B. T., Pomeroy, E. J., Zhou, B., Lee, J., Wang, Y., Bian, T., Miao, Z., Zhang, W., Sham, Y. Y., Odde, D. J., Eckfeldt, C. E., Xing, C. & Zhuang, C., Sep 4 2018, In : Molecular Pharmaceutics. 15, 9, p. 3892-3900 9 p.

Research output: Contribution to journalArticle

Chalcone
Microtubules
Tubulin
Growth
Neoplasms
5 Citations (Scopus)

Aptamer adaptive binding assessed by stilbene photoisomerization towards regenerating aptasensors

Zhou, Y., Wu, Y., Pokholenko, O., Grimsrud, M., Sham, Y. Y., Papper, V., Marks, R. & Steele, T., Mar 1 2018, In : Sensors and Actuators, B: Chemical. 257, p. 245-255 11 p.

Research output: Contribution to journalArticle

Photoisomerization
Stilbenes
stilbene
Fluorescence
fluorescence
3 Citations (Scopus)

Can 5-methylcytosine analogues with extended alkyl side chains guide DNA methylation?

Kotandeniya, D., Seiler, C. L., Fernandez, J., Pujari, S. S., Curwick, L., Murphy, K., Wickramaratne, S., Yan, S., Murphy, D., Sham, Y. Y. & Tretyakova, N. Y., Jan 1 2018, In : Chemical Communications. 54, 9, p. 1061-1064 4 p.

Research output: Contribution to journalArticle

Open Access
5-Methylcytosine
DNA
Methylation
Methyltransferases
Cytosine
2 Citations (Scopus)

Maintenance DNA Methyltransferase Activity in the Presence of Oxidized Forms of 5-Methylcytosine: Structural Basis for Ten Eleven Translocation-Mediated DNA Demethylation

Seiler, C. L., Fernandez, J., Koerperich, Z., Andersen, M. P., Kotandeniya, D., Nguyen, M. E., Sham, Y. Y. & Tretyakova, N. Y., Oct 23 2018, In : Biochemistry. 57, 42, p. 6061-6069 9 p.

Research output: Contribution to journalArticle

5-Methylcytosine
Methyltransferases
Maintenance
DNA
Cytosine
2 Citations (Scopus)
Open Access
Duchenne Muscular Dystrophy
Muscles
Membranes
Poloxamer
Striated Muscle
1 Citation (Scopus)

TnI Structural Interface with the N-Terminal Lobe of TnC as a Determinant of Cardiac Contractility

Vetter, A. D., Houang, E. M., Sell, J. J., Thompson, B. R., Sham, Y. Y. & Metzger, J. M., Apr 10 2018, In : Biophysical journal. 114, 7, p. 1646-1656 11 p.

Research output: Contribution to journalArticle

Troponin I
Proline
Sarcomeres
Molecular Dynamics Simulation
Histidine
2017
7 Citations (Scopus)
Lipid bilayers
Surface tension
lipids
Molecular dynamics
copolymers
10 Citations (Scopus)

Chemical End Group Modified Diblock Copolymers Elucidate Anchor and Chain Mechanism of Membrane Stabilization

Houang, E. M., Haman, K. J., Kim, M., Zhang, W., Lowe, D. A., Sham, Y. Y., Lodge, T. P., Hackel, B. J., Bates, F. S. & Metzger, J. M., Jul 3 2017, In : Molecular pharmaceutics. 14, 7, p. 2333-2339 7 p.

Research output: Contribution to journalArticle

Open Access
Membranes
Poloxamer
Ethylene Oxide
Muscular Dystrophies
Molecular Dynamics Simulation
8 Citations (Scopus)

Discovery of 1-Hydroxypyridine-2(1H)-thione-6-carboxylic Acid as a First-in-Class Low-Cytotoxic Nanomolar Metallo β-Lactamase Inhibitor

Shin, W. S., Bergstrom, A., Bonomo, R. A., Crowder, M. W., Muthyala, R. & Sham, Y. Y., Jan 1 2017, In : ChemMedChem. 12, 11, p. 845-849 5 p.

Research output: Contribution to journalArticle

Carboxylic Acids
Lead compounds
Carbapenems
Molecular modeling
Amoxicillin
5 Citations (Scopus)

The Stories Tryptophans Tell: Exploring Protein Dynamics of Heptosyltransferase I from Escherichia coli

Cote, J. M., Ramirez-Mondragon, C. A., Siegel, Z. S., Czyzyk, D. J., Gao, J., Sham, Y. Y., Mukerji, I. & Taylor, E. A., Feb 14 2017, In : Biochemistry. 56, 6, p. 886-895 10 p.

Research output: Contribution to journalArticle

Open Access
Tryptophan
Escherichia coli
Heptoses
Proteins
Adenosine Diphosphate
2016
14 Citations (Scopus)

Bypass of DNA-protein cross-links conjugated to the 7-deazaguanine position of DNA by translesion synthesis polymerases

Wickramaratne, S., Ji, S., Mukherjee, S., Su, Y., Pence, M. G., Lior-Hoffmann, L., Fu, I., Broyde, S., Guengerich, F. P., Distefano, M., Schãrer, O. D., Sham, Y. Y. & Tretyakova, N., Nov 4 2016, In : Journal of Biological Chemistry. 291, 45, p. 23589-23603 15 p.

Research output: Contribution to journalArticle

DNA
Proteins
Peptides
Guanine
7-deazaguanine
6 Citations (Scopus)

Mosquito salivary allergen Aed a 3: Cloning, comprehensive molecular analysis, and clinical evaluation

Peng, Z., Xu, W. W., Sham, Y. Y., Lam, H., Sun, D., Cheng, L., Rasic, N. F., Guan, Q., James, A. A. & Simons, F. E. R., May 1 2016, In : Allergy: European Journal of Allergy and Clinical Immunology. 71, 5, p. 621-628 8 p.

Research output: Contribution to journalArticle

Molecular Cloning
Culicidae
Allergens
Immunoglobulin E
Bites and Stings
2015
12 Citations (Scopus)

Discovery of 1-hydroxypyridine-2-thiones as selective histone deacetylase inhibitors and their potential application for treating leukemia

Muthyala, R., Shin, W. S., Xie, J. & Sham, Y. Y., Oct 1 2015, In : Bioorganic and Medicinal Chemistry Letters. 25, 19, p. 4320-4324 5 p.

Research output: Contribution to journalArticle

Histone Deacetylase Inhibitors
Leukemia
Histone Deacetylases
Antineoplastic Agents
Zinc
25 Citations (Scopus)

Inhibition of inflammatory and neuropathic pain by targeting a Mu opioid receptor/chemokine receptor5 heteromer (MOR-CCR5)

Akgun, E., Javed, M. I., Lunzer, M. M., Powers, M. D., Sham, Y. Y., Watanabe, Y. & Portoghese, P. S., Nov 12 2015, In : Journal of Medicinal Chemistry. 58, 21, p. 8647-8657 11 p.

Research output: Contribution to journalArticle

mu Opioid Receptor
Neuralgia
Chemokines
Chronic Pain
Morphine
2014
9 Citations (Scopus)

A novel drug discovery strategy: Mechanistic investigation of an enantiomeric antitumor agent targeting dual p53 and NF-κB pathways

Zhuang, C., Sheng, C., Shin, W. S., Wu, Y., Li, J., Yao, J., Dong, G., Zhang, W., Sham, Y. Y., Miao, Z. & Zhang, W., Jan 1 2014, In : Oncotarget. 5, 21, p. 10830-10839 10 p.

Research output: Contribution to journalArticle

Drug Discovery
Antineoplastic Agents
Neoplasms
Human Development
Molecular Dynamics Simulation
6 Citations (Scopus)

Cell permeable vanX inhibitors as vancomycin re-sensitizing agents

Muthyala, R., Rastogi, N., Shin, W. S., Peterson, M. L. & Sham, Y. Y., Jun 1 2014, In : Bioorganic and Medicinal Chemistry Letters. 24, 11, p. 2535-2538 4 p.

Research output: Contribution to journalArticle

Vancomycin
Vancomycin Resistance
Cell Wall
Zinc
Pharmacology
7 Citations (Scopus)

Molecular determinants of cardiac myocyte performance as conferred by isoform-specific tni residues

Thompson, B. R., Houang, E. M., Sham, Y. Y. & Metzger, J. M., May 20 2014, In : Biophysical journal. 106, 10, p. 2105-2114 10 p.

Research output: Contribution to journalArticle

Troponin I
Cardiac Myocytes
Protein Isoforms
Molecular Dynamics Simulation
Chordata
3 Citations (Scopus)

Mutations in the amino terminus of herpes simplex virus type 1 gL can reduce cell-cell fusion without affecting gH/gL trafficking

Zhou, W., Chen, F., Klyachkin, Y., Sham, Y. Y. & Geraghty, R. J., Jan 1 2014, In : Journal of virology. 88, 1, p. 739-744 6 p.

Research output: Contribution to journalArticle

Human herpesvirus 1
cell fusion
Membrane Fusion
Cell Fusion
Human Herpesvirus 1
64 Citations (Scopus)

Rapid identification of Keap1-Nrf2 small-molecule inhibitors through structure-based virtual screening and hit-based substructure search

Zhuang, C., Narayanapillai, S. C., Zhang, W., Sham, Y. Y. & Xing, C., Feb 13 2014, In : Journal of Medicinal Chemistry. 57, 3, p. 1121-1126 6 p.

Research output: Contribution to journalArticle

Structure-Activity Relationship
2013
19 Citations (Scopus)

Structure and Stability of Human Telomeric G-Quadruplex with Preclinical 9-Amino Acridines

Ferreira, R., Artali, R., Benoit, A., Gargallo, R., Eritja, R., Ferguson, D. M., Sham, Y. Y. & Mazzini, S., Mar 15 2013, In : PloS one. 8, 3, e57701.

Research output: Contribution to journalArticle

acridines
G-Quadruplexes
Acridines
DNA
Nuclear magnetic resonance
2012
34 Citations (Scopus)

5-Arylidenethioxothiazolidinones as Inhibitors of Tyrosyl-DNA Phosphodiesterase i

Sirivolu, V. R., Vernekar, S. K. V., Marchand, C., Naumova, A., Chergui, A., Renaud, A., Stephen, A. G., Chen, F., Sham, Y. Y., Pommier, Y. & Wang, Z., Oct 25 2012, In : Journal of Medicinal Chemistry. 55, 20, p. 8671-8684 14 p.

Research output: Contribution to journalArticle

Phosphodiesterase I
Tyrphostins
Type I DNA Topoisomerase
Structure-Activity Relationship
Cell Extracts
8 Citations (Scopus)

PH-responsive titratable inotropic performance of histidine-modified cardiac troponin i

Palpant, N. J., Houang, E. M., Sham, Y. Y. & Metzger, J. M., Apr 4 2012, In : Biophysical journal. 102, 7, p. 1570-1579 10 p.

Research output: Contribution to journalArticle

Troponin
Troponin I
Histidine
Myofibrils
Muscle Cells
41 Citations (Scopus)
Viruses
Hepacivirus
Ribonuclease H
Replicon
Catalytic Domain
2011
40 Citations (Scopus)

3-Hydroxypyrimidine-2,4-diones as an Inhibitor Scaffold of HIV Integrase

TANG, JING., Maddali, K., Metifiot, M., Sham, Y. Y., Vince, R., Pommier, Y. & Wang, Z., Apr 14 2011, In : Journal of Medicinal Chemistry. 54, 7, p. 2282-2292 11 p.

Research output: Contribution to journalArticle

Integrase Inhibitors
Integrases
HIV
Antiviral Agents
HIV Reverse Transcriptase
28 Citations (Scopus)

6-Benzoyl-3-hydroxypyrimidine-2,4-diones as dual inhibitors of HIV reverse transcriptase and integrase

TANG, JING., Maddali, K., Dreis, C. D., Sham, Y. Y., Vince, R., Pommier, Y. & Wang, Z., Apr 15 2011, In : Bioorganic and Medicinal Chemistry Letters. 21, 8, p. 2400-2402 3 p.

Research output: Contribution to journalArticle

HIV Reverse Transcriptase
Integrases
Antiviral Agents
Hydroxylation
RNA-Directed DNA Polymerase
17 Citations (Scopus)

A continuous fluorescence displacement assay for BioA: An enzyme involved in biotin biosynthesis

Wilson, D., Shi, C., Duckworth, B. P., Muretta, J. M., Manjunatha, U., Sham, Y. Y., Thomas, D. D. & Aldrich, C., Sep 1 2011, In : Analytical Biochemistry. 416, 1, p. 27-38 12 p.

Research output: Contribution to journalArticle

Biosynthesis
Biotin
Assays
Fluorescence
Pyridoxal Phosphate
46 Citations (Scopus)

N-3 hydroxylation of pyrimidine-2,4-diones yields dual inhibitors of HIV reverse transcriptase and integrase

TANG, JING., Maddali, K., Dreis, C. D., Sham, Y. Y., Vince, R., Pommier, Y. & Wang, Z., Jan 13 2011, In : ACS Medicinal Chemistry Letters. 2, 1, p. 63-67 5 p.

Research output: Contribution to journalArticle

HIV Reverse Transcriptase
Integrases
Hydroxylation
RNA-Directed DNA Polymerase
Reverse Transcriptase Inhibitors
22 Citations (Scopus)

pH-dependent transport of pemetrexed by breast cancer resistance protein

Li, L., Sham, Y. Y., Bikadi, Z. & Elmquist, W. F., Sep 1 2011, In : Drug Metabolism and Disposition. 39, 9, p. 1478-1485 8 p.

Research output: Contribution to journalArticle

Pemetrexed
Breast Neoplasms
Proteins
Protein Transport
Salts
2010
24 Citations (Scopus)
HIV Protease Inhibitors
Protease Inhibitors
Peptidomimetics
Lead compounds
Molecular modeling
29 Citations (Scopus)

Dual inhibitors of inosine monophosphate dehydrogenase and histone deacetylase based on a cinnamic hydroxamic acid core structure

Chen, L., Petrelli, R., Gao, G., Wilson, D., McLean, G. T., Jayaram, H. N., Sham, Y. Y. & Pankiewicz, K. W., Aug 15 2010, In : Bioorganic and Medicinal Chemistry. 18, 16, p. 5950-5964 15 p.

Research output: Contribution to journalArticle

Hydroxamic Acids
Inosine Monophosphate
Histone Deacetylases
Oxidoreductases
Histone Deacetylase Inhibitors
15 Citations (Scopus)

Pathogenic peptide deviations support a model of adaptive evolution of chordate cardiac performance by troponin mutations

Palpant, N. J., Houang, E. M., Delport, W., Hastings, K. E. M., Onufriev, A. V., Sham, Y. Y. & Metzger, J. M., Jul 1 2010, In : Physiological Genomics. 42, 2, p. 287-299 13 p.

Research output: Contribution to journalArticle

Chordata
Troponin
Myofibrils
Calcium
Peptides
29 Citations (Scopus)

Scaffold rearrangement of dihydroxypyrimidine inhibitors of HIV integrase: Docking model revisited

TANG, JING., Maddali, K., Pommier, Y., Sham, Y. Y. & Wang, Z., Jun 1 2010, In : Bioorganic and Medicinal Chemistry Letters. 20, 11, p. 3275-3279 5 p.

Research output: Contribution to journalArticle

HIV Integrase Inhibitors
Integrases
Scaffolds
Spumavirus
HIV Integrase
50 Citations (Scopus)

Triazole-linked inhibitors of inosine monophosphate dehydrogenase from human and mycobacterium tuberculosis

Chen, L., Wilson, D., Xu, Y., Aldrich, C., Felczak, K. Z., Sham, Y. Y. & Pankiewicz, K. W., Jun 24 2010, In : Journal of Medicinal Chemistry. 53, 12, p. 4768-4778 11 p.

Research output: Contribution to journalArticle

Inosine Monophosphate
Inosine
Triazoles
Mycobacterium tuberculosis
Oxidoreductases
2009
17 Citations (Scopus)

Selective inhibition of nicotinamide adenine dinucleotide kinases by dinucleoside disulfide mimics of nicotinamide adenine dinucleotide analogues

Petrelli, R., Sham, Y. Y., Chen, L., Felczak, K. Z., Bennett, E., Wilson, D., Aldrich, C., Yu, J. S., Cappellacci, L., Franchetti, P., Grifantini, M., Mazzola, F., Di Stefano, M., Magni, G. & Pankiewicz, K. W., Aug 1 2009, In : Bioorganic and Medicinal Chemistry. 17, 15, p. 5656-5664 9 p.

Research output: Contribution to journalArticle

Disulfides
NAD
Phosphotransferases
Inhibitory Concentration 50
Conformations
21 Citations (Scopus)

Shared Catalysis in Virus Entry and Bacterial Cell Wall Depolymerization

Cohen, D. N., Sham, Y. Y., Haugstad, G. D., Xiang, Y., Rossmann, M. G., Anderson, D. L. & Popham, D. L., Apr 3 2009, In : Journal of Molecular Biology. 387, 3, p. 607-618 12 p.

Research output: Contribution to journalArticle

Virus Internalization
Catalysis
Cell Wall
Lysostaphin
Peptidoglycan
2008
47 Citations (Scopus)
Free Association
CXC Chemokines
CC Chemokines
Molecular Dynamics Simulation
Chemokines
25 Citations (Scopus)

Design and synthesis of sulfoximine based inhibitors for HIV-1 protease

Raza, A., Sham, Y. Y. & Vince, R., Oct 15 2008, In : Bioorganic and Medicinal Chemistry Letters. 18, 20, p. 5406-5410 5 p.

Research output: Contribution to journalArticle

Indinavir
Substitution reactions
Observation
Human immunodeficiency virus 1 p16 protease
2007
38 Citations (Scopus)

A critical role for the loop region of the basic helix-loop-helix/ leucine zipper protein Mlx in DNA binding and glucose-regulated transcription

Ma, L., Sham, Y. Y., Walters, K. J. & Towle, H. C., Jan 1 2007, In : Nucleic acids research. 35, 1, p. 35-44 10 p.

Research output: Contribution to journalArticle

E-Box Elements
Leucine Zippers
Glucose
DNA
Proteins
74 Citations (Scopus)

A universal method for the preparation of covalent protein-DNA conjugates for use in creating protein nanostructures

Duckworth, B. P., Chen, Y., Wollack, J. W., Sham, Y. Y., Mueller, J., Taton, T. A. & Distefano, M. D., Dec 10 2007, In : Angewandte Chemie - International Edition. 46, 46, p. 8819-8822 4 p.

Research output: Contribution to journalArticle

Nanostructures
DNA
Proteins
Alkynes
Azides
39 Citations (Scopus)

Development of selective inhibitors for anti-apoptotic Bcl-2 proteins from BHI-1

Xing, C., Wang, L., Tang, X. H. & Sham, Y. Y., Mar 1 2007, In : Bioorganic and Medicinal Chemistry. 15, 5, p. 2167-2176 10 p.

Research output: Contribution to journalArticle

Proteins
Molecular modeling
bcl-X Protein
Protein Binding
Binding Sites
103 Citations (Scopus)

Direct inhibition of insulin-like growth factor-I receptor kinase activity by (-)-epigallocatechin-3-gallate regulates cell transformation

Li, M., He, Z., Ermakova, S., Zheng, D., Tang, F., Cho, Y. Y., Zhu, F., Ma, W-Y., Sham, Y. Y., Rogozin, E. A., Bode, A. M., Cao, Y. & Dong, Z., Mar 1 2007, In : Cancer Epidemiology Biomarkers and Prevention. 16, 3, p. 598-605 8 p.

Research output: Contribution to journalArticle

IGF Type 1 Receptor
Phosphotransferases
Neoplasms
Nude Mice
Phenotype
11 Citations (Scopus)

Impact of the C-terminal loop of histidine triad nucleotide binding protein 1 (Hint1) on substrate specificity

Chou, T. F., Sham, Y. Y. & Wagner, C. R., Nov 13 2007, In : Biochemistry. 46, 45, p. 13074-13079 6 p.

Research output: Contribution to journalArticle

Substrate Specificity
Histidine
Escherichia coli
Carrier Proteins
Nucleotides
2006
12 Citations (Scopus)

Amiodarone analog-dependent effects on CYP2C9-mediated metabolism and kinetic profiles

Kumar, V., Locuson, C. W., Sham, Y. Y. & Tracy, T. S., Jan 1 2006, In : Drug Metabolism and Disposition. 34, 10, p. 1688-1696 9 p.

Research output: Contribution to journalArticle

Naproxen
Amiodarone
Benzbromarone
Alleles
Genotype
2005
51 Citations (Scopus)

Homology modeling and molecular dynamics simulations of the mu opioid receptor in a membrane-aqueous system

Zhang, Y., Sham, Y. Y., Rajamani, R., Gao, J. & Portoghese, P. S., May 1 2005, In : ChemBioChem. 6, 5, p. 853-859 7 p.

Research output: Contribution to journalArticle

Rhodopsin
mu Opioid Receptor
Molecular Dynamics Simulation
Molecular dynamics
Membranes
67 Citations (Scopus)

Platelet factor 4 and interleukin-8 CXC chemokine heterodimer formation modulates function at the quaternary structural level

Nesmelova, I. V., Sham, Y., Dudek, A. Z., Van Eijk, L. I., Wu, G., Slungaard, A., Mortari, F., Griffioen, A. W. & Mayo, K. H., Feb 11 2005, In : Journal of Biological Chemistry. 280, 6, p. 4948-4958 11 p.

Research output: Contribution to journalArticle

Platelet Factor 4
CXC Chemokines
Interleukin-8
Chemokines
Cytokines
2003
55 Citations (Scopus)

Blue Matter, an application framework for molecular simulation on Blue Gene

Fitch, B. G., Germain, R. S., Mendell, M., Pitera, J., Pitman, M., Rayshubskiy, A., Sham, Y. Y., Suits, F., Swope, W., Ward, T. J. C., Zhestkov, Y. & Zhou, R., Jan 1 2003, In : Journal of Parallel and Distributed Computing. 63, 7-8, p. 759-773 15 p.

Research output: Contribution to journalArticle

Molecular Simulation
Genes
Gene
Partition
Decomposition
2002
35 Citations (Scopus)
Protein Unfolding
Tetrahydrofolate Dehydrogenase
Molecular Dynamics Simulation
Escherichia coli
Molecular dynamics
2001
12 Citations (Scopus)

A hierarchical, building-block-based computational scheme for protein structure prediction

Tsai, C. J., Ma, B., Sham, Y. Y., Kumar, S., Wolfson, H. J. & Nussinov, R., May 1 2001, In : IBM Journal of Research and Development. 45, 3-4, p. 513-523 11 p.

Research output: Contribution to journalArticle

Protein folding
Proteins
Conformations