Diffusion of proteins in crowded solutions studied by docking-based modeling von Singh, Amar, Kundrotas, Petras J., Vakser, Ilya A.

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Templates are available to model nearly all complexes of structurally characterized proteins von Kundrotas, Petras J, Zhu, Zhengwei, Janin, Joël, Vakser, Ilya A

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DOCKGROUND membrane protein-protein set von Kotthoff, Ian, Kundrotas, Petras J, Vakser, Ilya A

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Dockground scoring benchmarks for protein docking von Kotthoff, Ian, Kundrotas, Petras J., Vakser, Ilya A.

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Dockground: A comprehensive data resource for modeling of protein complexes von Kundrotas, Petras J., Anishchenko, Ivan, Dauzhenka, Taras, Kotthoff, Ian, Mnevets, Daniil, Copeland, Matthew M., Vakser, Ilya A.

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Natural language processing in text mining for structural modeling of protein complexes von Badal, Varsha D, Kundrotas, Petras J, Vakser, Ilya A

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Modeling complexes of modeled proteins von Anishchenko, Ivan, Kundrotas, Petras J., Vakser, Ilya A.

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How to choose templates for modeling of protein complexes: Insights from benchmarking template‐based docking von Chakravarty, Devlina, McElfresh, GW, Kundrotas, Petras J., Vakser, Ilya A.

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Template-Based Modeling of Protein-RNA Interactions von Zheng, Jinfang, Kundrotas, Petras J, Vakser, Ilya A, Liu, Shiyong

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Modeling CAPRI targets 110‐120 by template‐based and free docking using contact potential and combined scoring function von Kundrotas, Petras J., Anishchenko, Ivan, Badal, Varsha D., Das, Madhurima, Dauzhenka, Taras, Vakser, Ilya A.

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Docking by structural similarity at protein-protein interfaces von Sinha, Rohita, Kundrotas, Petras J., Vakser, Ilya A.

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Size of the protein-protein energy funnel in crowded environment von Jenkins, Nathan W, Kundrotas, Petras J, Vakser, Ilya A

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Text Mining for Protein Docking von Badal, Varsha D, Kundrotas, Petras J, Vakser, Ilya A

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Protein docking by the interface structure similarity: how much structure is needed? von Sinha, Rohita, Kundrotas, Petras J, Vakser, Ilya A

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Structural templates for modeling homodimers von Kundrotas, Petras J., Vakser, Ilya A., Janin, Joël

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Simulated unbound structures for benchmarking of protein docking in the DOCKGROUND resource von Kirys, Tatsiana, Ruvinsky, Anatoly M, Singla, Deepak, Tuzikov, Alexander V, Kundrotas, Petras J, Vakser, Ilya A

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Accuracy of protein-protein binding sites in high-throughput template-based modeling von Kundrotas, Petras J, Vakser, Ilya A

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Contact Potential for Structure Prediction of Proteins and Protein Complexes from Potts Model von Anishchenko, Ivan, Kundrotas, Petras J., Vakser, Ilya A.

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Docking-based long timescale simulation of cell-size protein systems at atomic resolution von Vakser, Ilya A, Grudinin, Sergei, Jenkins, Nathan W, Kundrotas, Petras J, Deeds, Eric J

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Application of docking methodologies to modeled proteins von Singh, Amar, Dauzhenka, Taras, Kundrotas, Petras J., Sternberg, Michael J. E., Vakser, Ilya A.

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