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Research Profile

Xiaoqin Zou

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Associate Professor

Office: 222D Dalton

Phone: (573) 882-6045

Email: zoux@missouri.edu

Lab URL: http://zoulab.dalton.missouri.edu/

Home Department: Physics and Astronomical Sciences

Concentration: Bioinformatics

Education: PhD, University of California at San Diego

Overview

Research Focus

Protein-ligand interactions, Protein-protein interactions, Virtual database screening, Computer-aided drug design, Modeling of quantitative structure-function relationships of membrane proteins

Honors, Awards, and Appointments

FASEB MARC Program Travel Award for Poster/Oral Presenters (2002)
Postdoctoral Fellowship of American Heart Association (1994-95)
Tuition and Fee Scholarship, University of California, San Diego (1988)
Scholarship of China-US Physics Examination Application Program (CUSPEA) (1987)
First Prize Scholarship at Wuhan University, China (1983-87)
NSF CAREER Award: A computational approach to template-based structure selection for protein-protein interactions.(2010)

Selected Publications

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Nucleic acids research

published: 2014

Citation

S Huang, X Zou, A knowledge-based scoring function for protein-RNA interactions derived from a statistical mechanics-based iterative method, Nucleic acids research, 2014.

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Proteins: Structure, Function, and Bioinformatics

published: 2014

vol. 82:4 pp. 620–632

Citation

M Lensink, I Moal, P Bates, P Kastritis, A Melquiond, X Zou, Blind prediction of interfacial water positions in CAPRI, Proteins: Structure, Function, and Bioinformatics, 620–632, 2014.

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The Plant Journal

published: 2014

vol. 77:2 pp. 222–234

Citation

J Xu, J Xie, C Yan, X Zou, D Ren, S Zhang, A chemical genetic approach demonstrates that MPK3/MPK6 activation and NADPH oxidase-mediated oxidative burst are two independent signaling events in plant immunity, The Plant Journal, 222–234, 2014.

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Journal of Biological Chemistry

published: 2014

vol. 289:8 pp. 4735–4742

Citation

M Li, S Chang, L Yang, J Shi, K McFarland, X Yang, A Moller, C Wang, X Zou, C Chi, others, Conopeptide Vt3. 1 preferentially inhibits BK potassium channels containing β4 subunits via electrostatic interactions, Journal of Biological Chemistry, 4735–4742, 2014.

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Springer

published: 2014

pp. 71–81

Citation

S Huang, X Zou, ITScorePro: An Efficient Scoring Program for Evaluating the Energy Scores of Protein Structures for Structure Prediction, Springer, 71–81, 2014.

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Journal of computational chemistry

published: 2014

vol. 35:12 pp. 932–943

Citation

S Grinter, X Zou, A Bayesian statistical approach of improving knowledge-based scoring functions for protein–ligand interactions, Journal of computational chemistry, 932–943, 2014.

Proteins

published: 2013

vol. 81:11 pp. 1980-1987

Citation

R Moretti, S Fleishman, R Agius, M Torchala, P Bates, P Kastritis, J Rodrigues, M Trellet, A Bonvin, M Cui, M Rooman, D Gillis, Y Dehouck, I Moal, M Romero-Durana, L Perez-Cano, C Pallara, B Jimenez, J Fernandez-Recio, S Flores, M Pacella, K Praneeth Kilambi, J Gray, P Popov, S Grudinin, J Esquivel-Rodríguez, D Kihara, N Zhao, D Korkin, X Zhu, O Demerdash, J Mitchell, E Kanamori, Y Tsuchiya, H Nakamura, H Lee, H Park, C Seok, J Sarmiento, S Liang, S Teraguchi, D Standley, H Shimoyama, G Terashi, M Takeda-Shitaka, M Iwadate, H Umeyama, D Beglov, D Hall, D Kozakov, S Vajda, B Pierce, H Hwang, T Vreven, Z Weng, Y Huang, H Li, X Yang, X Ji, S Liu, Y Xiao, M Zacharias, S Qin, H Zhou, S Huang, X Zou, S Velankar, J Janin, S Wodak, D Baker, Community-wide evaluation of methods for predicting the effect of mutations on protein-protein interactions, Proteins, 1980-1987, 2013.

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Proteins: Structure, Function, and Bioinformatics

published: 2013

vol. 81:12 pp. 2183–2191

Citation

S Huang, C Yan, S Grinter, S Chang, L Jiang, X Zou, Inclusion of the orientational entropic effect and low-resolution experimental information for protein–protein docking in Critical Assessment of PRedicted Interactions (CAPRI), Proteins: Structure, Function, and Bioinformatics, 2183–2191, 2013.

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Journal of Chemical Information and Modeling

published: 2013

vol. 53:8 pp. 1905-1914

Citation

S Grinter, C Yan, S Huang, L Jiang, X Zou, Automated large-scale file preparation, docking and scoring: Evaluation of ITScore and STScore using the 2012 Community Structure-Activity Resource Benchmark, Journal of Chemical Information and Modeling, 1905-1914, 2013.

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Journal of computational chemistry

published: 2013

vol. 34:4 pp. 311–318

Citation

S Huang, X Zou, A nonredundant structure dataset for benchmarking protein-RNA computational docking, Journal of computational chemistry, 311–318, 2013.

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The Journal of Physical Chemistry B

published: 2012

vol. 116:22 pp. 6431–6438

Citation

T Yu, X Wang, J Sang, C Pan, X Zou, T Chen, X Zou, Influences of mutations on the electrostatic binding free energies of chloride ions in Escherichia coli ClC, The Journal of Physical Chemistry B, 6431–6438, 2012.

Journal of Chemical Information and Modeling

published: 2011

vol. 51:9 pp. 2097-2106

Keywords: Protein Binding, proteins, Crystallization, Ligands, Structure-Activity Relationship

Citation

S Huang, X Zou, Scoring and lessons learned with the CSAR benchmark using an improved iterative knowledge-based scoring function, Journal of Chemical Information and Modeling, 2097-2106, 2011.

Journal of Chemical Information and Modeling

published: 2011

vol. 51:9 pp. 2107-2114

Keywords: Models, Molecular, Ligands, binding sites

Citation

S Huang, X Zou, Construction and test of ligand decoy sets using MDock: Community structure-activity resource benchmarks for binding mode prediction, Journal of Chemical Information and Modeling, 2107-2114, 2011.

Proteins

published: 2011

vol. 79:9 pp. 2648-2661

Keywords: computational biology, Algorithms, Databases, Protein, Molecular Dynamics Simulation, Protein Conformation, Protein Folding, Thermodynamics, proteins

Citation

S Huang, X Zou, Statistical mechanics-based method to extract atomic distance-dependent potentials from protein structures, Proteins, 2648-2661, 2011.

Journal of Molecular Graphics & Modelling

published: 2011

vol. 29:6 pp. 795-799

Keywords: Antineoplastic Agents, Aza Compounds, Benzophenones, Bicyclo Compounds, Heterocyclic, Breast Neoplasms, Cell Line, Tumor, Cell Survival, DNA, Enzyme Inhibitors, Female, Humans, Intramolecular Transferases, Models, Molecular, Protein Binding, Protein Interaction Domains and Motifs, Tumor Suppressor Protein p53, computational biology, drug discovery

Citation

S Grinter, Y Liang, S Huang, S Hyder, X Zou, An inverse docking approach for identifying new potential anti-cancer targets, Journal of Molecular Graphics & Modelling, 795-799, 2011.

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Nucleic Acid Therapeutics (Formerly Oligonucleotides)

published: 2011

vol. 21:5 pp. 299-314

Citation

W Rockey, F Hernandez, S Huang, S Cao, C Howell, G Thomas, X Liu, N Lapteva, D Spencer, J McNamara, X Zou, S Chen, P Giangrande, Rational truncation of an RNA aptamer to prostate-specific membrane antigen using computational structural modeling, Nucleic Acid Therapeutics (Formerly Oligonucleotides), 299-314, 2011.

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Physical Chemistry Chemical Physics

published: 2010

vol. 12:40 pp. 12899–12908

Citation

S Huang, S Grinter, X Zou, Scoring functions and their evaluation methods for protein–ligand docking: recent advances and future directions, Physical Chemistry Chemical Physics, 12899–12908, 2010.

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The Journal of Physical Chemistry B

published: 2009

vol. 113:35 pp. 11793–11799

Citation

H Liu, S Grinter, X Zou, Multiscale generalized born modeling of ligand binding energies for virtual database screening, The Journal of Physical Chemistry B, 11793–11799, 2009.

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