Sequence-Specific Recognition of DNA by Proteins: Binding Motifs Discovered Using a Novel Statistical/Computational Analysis von Jakubec, David, Laskowski, Roman A, Vondrasek, Jiri

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TLR8/TLR7 dysregulation due to a novel TLR8 mutation causes severe autoimmune hemolytic anemia and autoinflammation in identical twins von Fejtkova, Martina, Sukova, Martina, Hlozkova, Katerina, Skvarova Kramarzova, Karolina, Rackova, Marketa, Jakubec, David, Bakardjieva, Marina, Bloomfield, Marketa, Klocperk, Adam, Parackova, Zuzana, Sediva, Anna, Aluri, Jahnavi, Novakova, Michaela, Kalina, Tomas, Fronkova, Eva, Hrusak, Ondrej, Malcova, Hana, Sedlacek, Petr, Liba, Zuzana, Kudr, Martin, Stary, Jan, Cooper, Megan A., Svaton, Michael, Kanderova, Veronika

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Widespread evolutionary crosstalk among protein domains in the context of multi-domain proteins von Jakubec, David, Kratochvíl, Miroslav, Vymĕtal, Jiří, Vondrášek, Jiří

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PrankWeb 3: accelerated ligand-binding site predictions for experimental and modelled protein structures von Jakubec, David, Skoda, Petr, Krivak, Radoslav, Novotny, Marian, Hoksza, David

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Representative Amino Acid Side-Chain Interactions in Protein–DNA Complexes: A Comparison of Highly Accurate Correlated Ab Initio Quantum Mechanical Calculations and Efficient Appro... von Hostaš, Jiří, Jakubec, Dávid, Laskowski, Roman A, Gnanasekaran, Ramachandran, Řezáč, Jan, Vondrášek, Jiří, Hobza, Pavel

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Efficient Estimation of Absolute Binding Free Energy for a Homeodomain–DNA Complex from Nonequilibrium Pulling Simulations von Jakubec, David, Vondrášek, Jiří

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Large-Scale Quantitative Assessment of Binding Preferences in Protein–Nucleic Acid Complexes von Jakubec, Dávid, Hostaš, Jiří, Laskowski, Roman A, Hobza, Pavel, Vondrášek, Jiří

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Amino Acid Interactions (INTAA) web server v2.0: a single service for computation of energetics and conservation in biomolecular 3D structures von Vymětal, Jiří, Jakubec, David, Galgonek, Jakub, Vondrášek, Jiří

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Hydrophobic Amino Acids as Universal Elements of Protein-Induced DNA Structure Deformation von Faltejsková, Kateřina, Jakubec, David, Vondrášek, Jiří

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Can All-Atom Molecular Dynamics Simulations Quantitatively Describe Homeodomain–DNA Binding Equilibria? von Jakubec, David, Vondrášek, Jiří

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Amino Acid Interaction (INTAA) web server von Galgonek, Jakub, Vymetal, Jirí, Jakubec, David, Vondrášek, Jirí

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PDBe-KB: collaboratively defining the biological context of structural data von Varadi, Mihaly, Anyango, Stephen, Armstrong, David, Berrisford, John, Choudhary, Preeti, Deshpande, Mandar, Nadzirin, Nurul, Nair, Sreenath S, Pravda, Lukas, Tanweer, Ahsan, Al-Lazikani, Bissan, Andreini, Claudia, Barton, Geoffrey J, Bednar, David, Berka, Karel, Blundell, Tom, Brock, Kelly P, Carazo, Jose Maria, Damborsky, Jiri, David, Alessia, Dey, Sucharita, Dunbrack, Roland, Recio, Juan Fernandez, Fraternali, Franca, Gibson, Toby, Helmer-Citterich, Manuela, Hoksza, David, Hopf, Thomas, Jakubec, David, Kannan, Natarajan, Krivak, Radoslav, Kumar, Manjeet, Levy, Emmanuel D, London, Nir, Macias, Jose Ramon, Srivatsan, Madhusudhan M, Marks, Debora S, Martens, Lennart, McGowan, Stuart A, McGreig, Jake E, Modi, Vivek, Parra, R Gonzalo, Pepe, Gerardo, Piovesan, Damiano, Prilusky, Jaime, Putignano, Valeria, Radusky, Leandro G, Ramasamy, Pathmanaban, Rausch, Atilio O, Reuter, Nathalie, Rodriguez, Luis A, Rollins, Nathan J, Rosato, Antonio, Rubach, Paweł, Serrano, Luis, Singh, Gulzar, Skoda, Petr, Sorzano, Carlos Oscar S, Stourac, Jan, Sulkowska, Joanna I, Svobodova, Radka, Tichshenko, Natalia, Tosatto, Silvio C E, Vranken, Wim, Wass, Mark N, Xue, Dandan, Zaidman, Daniel, Thornton, Janet, Sternberg, Michael, Orengo, Christine, Velankar, Sameer

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Noncovalent Interactions in Specific Recognition Motifs of Protein–DNA Complexes von Stasyuk, Olga A, Jakubec, David, Vondrášek, Jiří, Hobza, Pavel

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3DPatch: fast 3D structure visualization with residue conservation von Jakubec, David, Vondrášek, Jiří, Finn, Robert D

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EMC is required for biogenesis of Xport‐A, an essential chaperone of Rhodopsin‐1 and the TRP channel von Gaspar, Catarina J, Vieira, Lígia C, Santos, Cristiana C, Christianson, John C, Jakubec, David, Strisovsky, Kvido, Adrain, Colin, Domingos, Pedro M

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Membrane Protein Dimerization in Cell-Derived Lipid Membranes Measured by FRET with MC Simulations von Škerle, Jan, Humpolíčková, Jana, Johnson, Nicholas, Rampírová, Petra, Poláchová, Edita, Fliegl, Monika, Dohnálek, Jan, Suchánková, Anna, Jakubec, David, Strisovsky, Kvido

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jakubec_plosone_2016.tar.gz von Jakubec, David

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PDBe-KB: collaboratively defining the biological context of structural data von Varadi, Mihaly, Anyango, Stephen, Armstrong, David, Berrisford, John, Choudhary, Preeti, Deshpande, Mandar, Nadzirin, Nurul, Nair, Sreenath S, Pravda, Lukas, Tanweer, Ahsan, Al-Lazikani, Bissan, Andreini, Claudia, Barton, Geoffrey J, Bednar, David, Berka, Karel, Blundell, Tom, Brock, Kelly P, Maria Carazo, Jose, Damborsky, Jiri, David, Alessia, Dey, Sucharita, Dunbrack, Roland, Fernandez Recio, Juan, Fraternali, Franca, Gibson, Toby, Helmer-Citterich, Manuela, Hoksza, David, Hopf, Thomas, Jakubec, David, Kannan, Natarajan, Krivak, Radoslav, Kumar, Manjeet, Levy, Emmanuel D, London, Nir, Macias, Jose Ramon, Srivatsan, Madhusudhan M, Marks, Debora S, Martens, Lennart, McGowan, Stuart A, McGreig, Jake E, Modi, Vivek, Gonzalo Parra, R, Pepe, Gerardo, Piovesan, Damiano, Prilusky, Jaime, Putignano, Valeria, Radusky, Leandro G, Ramasamy, Pathmanaban, Rausch, Atilio O, Reuter, Nathalie, Rodriguez, Luis A, Rollins, Nathan J, Rosato, Antonio, Serrano, Luis, Singh, Gulzar, Skoda, Petr, Sorzano, Carlos Oscar S, Stourac, Jan, Sulkowska, Joanna, Svobodova, Radka, Tichshenko, Natalia, Tosatto, Silvio CE, Vranken, Wim, Wass, Mark N, Xue, Dandan, Zaidman, Daniel, Thornton, Janet, Sternberg, Michael, Orengo, Christine, Velankar, Sameer

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PDBe-KB: collaboratively defining the biological context of structural data von Varadi, Mihaly, Anyango, Stephen, Armstrong, David, Berrisford, John, Choudhary, Preeti, Deshpande, Mandar, Nadzirin, Nurul, Nair, Sreenath S, Pravda, Lukas, Tanweer, Ahsan, Al-Lazikani, Bissan, Andreini, Claudia, Barton, Geoffrey J, Bednar, David, Berka, Karel, Blundell, Tom, Brock, Kelly P, Carazo, Jose Maria, Damborsky, Jiri, David, Alessia, Dey, Sucharita, Dunbrack, Roland, Recio, Juan Fernandez, Fraternali, Franca, Gibson, Toby, Helmer-Citterich, Manuela, Hoksza, David, Hopf, Thomas, Jakubec, David, Kannan, Natarajan, Krivak, Radoslav, Kumar, Manjeet, Levy, Emmanuel D, London, Nir, Macias, Jose Ramon, Srivatsan, Madhusudhan M, Marks, Debora S, Martens, Lennart, McGowan, Stuart A, McGreig, Jake E, Modi, Vivek, Parra, R. Gonzalo, Pepe, Gerardo, Piovesan, Damiano, Prilusky, Jaime, Putignano, Valeria, Radusky, Leandro G, Ramasamy, Pathmanaban, Rausch, Atilio O, Reuter, Nathalie, Rodriguez, Luis A, Rollins, Nathan J, Rosato, Antonio, Rubach, Paweł, Serrano, Luis, Singh, Gulzar, Skoda, Petr, Sorzano, Carlos Oscar S, Stourac, Jan, Sulkowska, Joanna I, Svobodova, Radka, Tichshenko, Natalia, Tosatto, Silvio C.E, Vranken, Wim, Wass, Mark N, Xue, Dandan, Zaidman, Daniel, Thornton, Janet, Sternberg, Michael, Orengo, Christine, Velankar, Sameer

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Widespread evolutionary crosstalk among protein domains in the context of multi-domain proteins von Jakubec, David, Kratochvíl, Miroslav, VymÄtal, Jirí, Vondrásek, Jirí

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