Search

Your search keyword '"Ain, Qurrat U."' showing total 15 results
Start Over Author "Ain, Qurrat U."
15 results on '"Ain, Qurrat U."'

2. 11th German Conference on Chemoinformatics (GCC 2015): Fulda, Germany. 8–10 November 2015

Author

Fechner, Uli, de Graaf, Chris, Torda, Andrew E., Güssregen, Stefan, Evers, Andreas, Matter, Hans, Hessler, Gerhard, Richmond, Nicola J., Schmidtke, Peter, Segler, Marwin H. S., Waller, Mark P., Pleik, Stefanie, Shea, Joan-Emma, Levine, Zachary, Mullen, Ryan, van den Broek, Karina, Epple, Matthias, Kuhn, Hubert, Truszkowski, Andreas, Zielesny, Achim, Fraaije, Johannes (Hans), Gracia, Ruben Serral, Kast, Stefan M., Bulusu, Krishna C., Bender, Andreas, Yosipof, Abraham, Nahum, Oren, Senderowitz, Hanoch, Krotzky, Timo, Schulz, Robert, Wolber, Gerhard, Bietz, Stefan, Rarey, Matthias, Zimmermann, Markus O., Lange, Andreas, Ruff, Manuel, Heidrich, Johannes, Onlia, Ionut, Exner, Thomas E., Boeckler, Frank M., Bermudez, Marcel, Firaha, Dzmitry S., Hollóczki, Oldamur, Kirchner, Barbara, Tautermann, Christofer S., Volkamer, Andrea, Eid, Sameh, Turk, Samo, Rippmann, Friedrich, Fulle, Simone, Saleh, Noureldin, Saladino, Giorgio, Gervasio, Francesco L., Haensele, Elke, Banting, Lee, Whitley, David C., Oliveira Santos, Jana Sopkova-de, Bureau, Ronan, Clark, Timothy, Sandmann, Achim, Lanig, Harald, Kibies, Patrick, Heil, Jochen, Hoffgaard, Franziska, Frach, Roland, Engel, Julian, Smith, Steven, Basu, Debjit, Rauh, Daniel, Kohlbacher, Oliver, Boeckler, Frank M., Essex, Jonathan W., Bodnarchuk, Michael S., Ross, Gregory A., Finkelmann, Arndt R., Göller, Andreas H., Schneider, Gisbert, Husch, Tamara, Schütter, Christoph, Balducci, Andrea, Korth, Martin, Ntie-Kang, Fidele, Günther, Stefan, Sippl, Wolfgang, Mbaze, Luc Meva’a, Ntie-Kang, Fidele, Simoben, Conrad V., Lifongo, Lydia L., Ntie-Kang, Fidele, Judson, Philip, Barilla, Jiří, Lokajíček, Miloš V., Pisaková, Hana, Simr, Pavel, Kireeva, Natalia, Petrov, Alexandre, Ostroumov, Denis, Solovev, Vitaly P., Pervov, Vladislav S., Friedrich, Nils-Ole, Sommer, Kai, Rarey, Matthias, Kirchmair, Johannes, Proschak, Eugen, Weber, Julia, Moser, Daniel, Kalinowski, Lena, Achenbach, Janosch, Mackey, Mark, Cheeseright, Tim, Renner, Gerrit, Renner, Gerrit, Schmidt, Torsten C., Schram, Jürgen, Egelkraut-Holtus, Marion, van Oeyen, Albert, Kalliokoski, Tuomo, Fourches, Denis, Ibezim, Akachukwu, Mbah, Chika J., Adikwu, Umale M., Nwodo, Ngozi J., Steudle, Alexander, Masek, Brian B., Nagy, Stephan, Baker, David, Soltanshahi, Fred, Dorfman, Roman, Dubrucq, Karen, Patel, Hitesh, Koch, Oliver, Mrugalla, Florian, Kast, Stefan M., Ain, Qurrat U., Fuchs, Julian E., Owen, Robert M., Omoto, Kiyoyuki, Torella, Rubben, Pryde, David C., Glen, Robert, Bender, Andreas, Hošek, Petr, Spiwok, Vojtěch, Mervin, Lewis H., Barrett, Ian, Firth, Mike, Murray, David C., McWilliams, Lisa, Cao, Qing, Engkvist, Ola, Warszycki, Dawid, Śmieja, Marek, Bojarski, Andrzej J., Aniceto, Natalia, Freitas, Alex, Ghafourian, Taravat, Herrmann, Guido, Eigner-Pitto, Valentina, Naß, Alexandra, Kurczab, Rafał, Bojarski, Andrzej J., Lange, Andreas, Günther, Marcel B., Hennig, Susanne, Büttner, Felix M., Schall, Christoph, Sievers-Engler, Adrian, Ansideri, Francesco, Koch, Pierre, Stehle, Thilo, Laufer, Stefan, Böckler, Frank M., Zdrazil, Barbara, Montanari, Floriane, Ecker, Gerhard F., Grebner, Christoph, Hogner, Anders, Ulander, Johan, Edman, Karl, Guallar, Victor, Tyrchan, Christian, Ulander, Johan, Tyrchan, Christian, Klute, Wolfgang, Bergström, Fredrik, Kramer, Christian, Nguyen, Quoc Dat, Frach, Roland, Kibies, Patrick, Strohfeldt, Steven, Böttcher, Saraphina, Pongratz, Tim, Horinek, Dominik, Kast, Stefan M., Rupp, Bernd, Al-Yamori, Raed, Lisurek, Michael, Kühne, Ronald, Furtado, Filipe, van den Broek, Karina, Wessjohann, Ludger, Mathea, Miriam, Baumann, Knut, Mohamad-Zobir, Siti Zuraidah, Fu, Xianjun, Fan, Tai-Ping, Bender, Andreas, Kuhn, Maximilian A., Sotriffer, Christoph A., Zoufir, Azedine, Li, Xitong, Mervin, Lewis, Berg, Ellen, Polokoff, Mark, Ihlenfeldt, Wolf D., Ihlenfeldt, Wolf D., Pretzel, Jette, Alhalabi, Zayan, Fraczkiewicz, Robert, Waldman, Marvin, Clark, Robert D., Shaikh, Neem, Garg, Prabha, Kos, Alexander, Himmler, Hans-Jürgen, Sandmann, Achim, Jardin, Christophe, Sticht, Heinrich, Steinbrecher, Thomas B., Dahlgren, Markus, Cappel, Daniel, Lin, Teng, Wang, Lingle, Krilov, Goran, Abel, Robert, Friesner, Richard, Sherman, Woody, Pöhner, Ina A., Panecka, Joanna, Wade, Rebecca C., Bietz, Stefan, Schomburg, Karen T., Hilbig, Matthias, Rarey, Matthias, Jäger, Christian, Wieczorek, Vivien, Westerhoff, Lance M., Borbulevych, Oleg Y., Demuth, Hans-Ulrich, Buchholz, Mirko, Schmidt, Denis, Rickmeyer, Thomas, Krotzky, Timo, Kolb, Peter, Mittal, Sumit, Sánchez-García, Elsa, Nogueira, Mauro S., Oliveira, Tiago B., da Costa, Fernando B., and Schmidt, Thomas J.

Published
2016
Full Text
View/download PDF

3. Analysis of Differential Efficacy and Affinity of GABAA (α1/α2) Selective Modulators

Author

Ain, Qurrat U, Owen, Robert M, Omoto, Kiyoyuki, Torella, Rubben, Bulusu, Krishna C, Pryde, David C, Glen, Robert C, Fuchs, Julian E, Bender, Andreas, Glen, Robert [0000-0003-1759-2914], Bender, Andreas [0000-0002-6683-7546], and Apollo - University of Cambridge Repository

Subjects
Principal Component Analysis, proteochemometric modeling, Molecular Sequence Data, GABAA α2, Hydrogen Bonding, GABAA α1, Molecular Dynamics Simulation, Protein Structure, Secondary, affinity modeling, Benzodiazepines, Receptors, GABA, Animals, Butyric Acid, Humans, Amino Acid Sequence, GABA-A Receptor Agonists, relative efficacy, selective modulators
Abstract

Selective modulators of the γ-amino butyric acid (GABAA) family of receptors have the potential to treat a range of disease states related to cognition, pain, and anxiety. While the development of various α subunit-selective modulators is currently underway for the treatment of anxiety disorders, a mechanistic understanding of the correlation between their bioactivity and efficacy, based on ligand-target interactions, is currently still lacking. In order to alleviate this situation, in the current study we have analyzed, using ligand- and structure-based methods, a data set of 5440 GABAA modulators. The Spearman correlation (ρ) between binding activity and efficacy of compounds was calculated to be 0.008 and 0.31 against the α1 and α2 subunits of GABA receptor, respectively; in other words, the compounds had little diversity in structure and bioactivity, but they differed significantly in efficacy. Two compounds were selected as a case study for detailed interaction analysis due to the small difference in their structures and affinities (ΔpKi(comp1_α1 - comp2_α1) = 0.45 log units, ΔpKi(comp1_α2 - comp2_α2) = 0 log units) as compared to larger relative efficacies (ΔRE(comp1_α1 - comp2_α1) = 1.03, ΔRE(comp1_α2 - comp2_α2) = 0.21). Docking analysis suggested that His-101 is involved in a characteristic interaction of the α1 receptor with both compounds 1 and 2. Residues such as Phe-77, Thr-142, Asn-60, and Arg-144 of the γ chain of the α1γ2 complex also showed interactions with heterocyclic rings of both compounds 1 and 2, but these interactions were disturbed in the case of α2γ2 complex docking results. Binding pocket stability analysis based on molecular dynamics identified three substitutions in the loop C region of the α2 subunit, namely, G200E, I201T, and V202I, causing a reduction in the flexibility of α2 compared to α1. These amino acids in α2, as compared to α1, were also observed to decrease the vibrational and dihedral entropy and to increase the hydrogen bond content in α2 in the apo state. However, freezing of both α1 and α2 was observed in the ligand-bound state, with an increased number of internal hydrogen bonds and increased entropy. Therefore, we hypothesize that the amino acid differences in the loop C region of α2 are responsible for conformational changes in the protein structure compared to α1, as well as for the binding modes of compounds and hence their functional signaling.

Published
2018
Full Text
View/download PDF

13. Analysis of Differential Efficacy and Affinity of GABAA(α1/α2) Selective Modulators

Author

Ain, Qurrat U., Owen, Robert M., Omoto, Kiyoyuki, Torella, Rubben, Bulusu, Krishna C., Pryde, David C., Glen, Robert C., Fuchs, Julian E., and Bender, Andreas

Abstract

Selective modulators of the γ-amino butyric acid (GABAA) family of receptors have the potential to treat a range of disease states related to cognition, pain, and anxiety. While the development of various α subunit-selective modulators is currently underway for the treatment of anxiety disorders, a mechanistic understanding of the correlation between their bioactivity and efficacy, based on ligand–target interactions, is currently still lacking. In order to alleviate this situation, in the current study we have analyzed, using ligand- and structure-based methods, a data set of 5440 GABAAmodulators. The Spearman correlation (ρ) between binding activity and efficacy of compounds was calculated to be 0.008 and 0.31 against the α1 and α2 subunits of GABA receptor, respectively; in other words, the compounds had little diversity in structure and bioactivity, but they differed significantly in efficacy. Two compounds were selected as a case study for detailed interaction analysis due to the small difference in their structures and affinities (ΔpKi(comp1_α1 – comp2_α1)= 0.45 log units, ΔpKi(comp1_α2 – comp2_α2)= 0 log units) as compared to larger relative efficacies (ΔRE(comp1_α1 – comp2_α1)= 1.03, ΔRE(comp1_α2 – comp2_α2)= 0.21). Docking analysis suggested that His-101 is involved in a characteristic interaction of the α1 receptor with both compounds 1and 2. Residues such as Phe-77, Thr-142, Asn-60, and Arg-144 of the γ chain of the α1γ2 complex also showed interactions with heterocyclic rings of both compounds 1and 2, but these interactions were disturbed in the case of α2γ2 complex docking results. Binding pocket stability analysis based on molecular dynamics identified three substitutions in the loop C region of the α2 subunit, namely, G200E, I201T, and V202I, causing a reduction in the flexibility of α2 compared to α1. These amino acids in α2, as compared to α1, were also observed to decrease the vibrational and dihedral entropy and to increase the hydrogen bond content in α2 in the apo state. However, freezing of both α1 and α2 was observed in the ligand-bound state, with an increased number of internal hydrogen bonds and increased entropy. Therefore, we hypothesize that the amino acid differences in the loop C region of α2 are responsible for conformational changes in the protein structure compared to α1, as well as for the binding modes of compounds and hence their functional signaling.

Published
2016
Full Text
View/download PDF

14. 11th German Conference on Chemoinformatics (GCC 2015)

Author

Fechner, Uli, de Graaf, Chris, Torda, Andrew E., Güssregen, Stefan, Evers, Andreas, Matter, Hans, Hessler, Gerhard, Richmond, Nicola J., Schmidtke, Peter, Segler, Marwin H. S., Waller, Mark P., Pleik, Stefanie, Shea, Joan-Emma, Levine, Zachary, Mullen, Ryan, van den Broek, Karina, Epple, Matthias, Kuhn, Hubert, Truszkowski, Andreas, Zielesny, Achim, Fraaije, Johannes, Gracia, Ruben Serral, Kast, Stefan M., Bulusu, Krishna C., Bender, Andreas, Yosipof, Abraham, Nahum, Oren, Senderowitz, Hanoch, Krotzky, Timo, Schulz, Robert, Wolber, Gerhard, Bietz, Stefan, Rarey, Matthias, Zimmermann, Markus O., Lange, Andreas, Ruff, Manuel, Heidrich, Johannes, Onlia, Ionut, Exner, Thomas E., Boeckler, Frank M., Bermudez, Marcel, Firaha, Dzmitry S., Hollóczki, Oldamur, Kirchner, Barbara, Tautermann, Christofer S., Volkamer, Andrea, Eid, Sameh, Turk, Samo, Rippmann, Friedrich, Fulle, Simone, Saleh, Noureldin, Saladino, Giorgio, Gervasio, Francesco L., Haensele, Elke, Banting, Lee, Whitley, David C., Oliveira Santos, Jana Sopkova-de, Bureau, Ronan, Clark, Timothy, Sandmann, Achim, Lanig, Harald, Kibies, Patrick, Heil, Jochen, Hoffgaard, Franziska, Frach, Roland, Engel, Julian, Smith, Steven, Basu, Debjit, Rauh, Daniel, Kohlbacher, Oliver, Essex, Jonathan W., Bodnarchuk, Michael S., Ross, Gregory A., Finkelmann, Arndt R., Göller, Andreas H., Schneider, Gisbert, Husch, Tamara, Schütter, Christoph, Balducci, Andrea, Korth, Martin, Ntie-Kang, Fidele, Günther, Stefan, Sippl, Wolfgang, Mbaze, Luc Meva’a, Simoben, Conrad V., Lifongo, Lydia L., Judson, Philip, Barilla, Jiří, Lokajíček, Miloš V., Pisaková, Hana, Simr, Pavel, Kireeva, Natalia, Petrov, Alexandre, Ostroumov, Denis, Solovev, Vitaly P., Pervov, Vladislav S., Friedrich, Nils-Ole, Sommer, Kai, Kirchmair, Johannes, Proschak, Eugen, Weber, Julia, Moser, Daniel, Kalinowski, Lena, Achenbach, Janosch, Mackey, Mark, Cheeseright, Tim, Renner, Gerrit, Schmidt, Torsten C., Schram, Jürgen, Egelkraut-Holtus, Marion, van Oeyen, Albert, Kalliokoski, Tuomo, Fourches, Denis, Ibezim, Akachukwu, Mbah, Chika J., Adikwu, Umale M., Nwodo, Ngozi J., Steudle, Alexander, Masek, Brian B., Nagy, Stephan, Baker, David, Soltanshahi, Fred, Dorfman, Roman, Dubrucq, Karen, Patel, Hitesh, Koch, Oliver, Mrugalla, Florian, Ain, Qurrat U., Fuchs, Julian E., Owen, Robert M., Omoto, Kiyoyuki, Torella, Rubben, Pryde, David C., Glen, Robert, Hošek, Petr, Spiwok, Vojtěch, Mervin, Lewis H., Barrett, Ian, Firth, Mike, Murray, David C., McWilliams, Lisa, Cao, Qing, Engkvist, Ola, Warszycki, Dawid, Śmieja, Marek, Bojarski, Andrzej J., Aniceto, Natalia, Freitas, Alex, Ghafourian, Taravat, Herrmann, Guido, Eigner-Pitto, Valentina, Naß, Alexandra, Kurczab, Rafał, Günther, Marcel B., Hennig, Susanne, Büttner, Felix M., Schall, Christoph, Sievers-Engler, Adrian, Ansideri, Francesco, Koch, Pierre, Stehle, Thilo, Laufer, Stefan, Böckler, Frank M., Zdrazil, Barbara, Montanari, Floriane, Ecker, Gerhard F., Grebner, Christoph, Hogner, Anders, Ulander, Johan, Edman, Karl, Guallar, Victor, Tyrchan, Christian, Klute, Wolfgang, Bergström, Fredrik, Kramer, Christian, Nguyen, Quoc Dat, Strohfeldt, Steven, Böttcher, Saraphina, Pongratz, Tim, Horinek, Dominik, Rupp, Bernd, Al-Yamori, Raed, Lisurek, Michael, Kühne, Ronald, Furtado, Filipe, Wessjohann, Ludger, Mathea, Miriam, Baumann, Knut, Mohamad-Zobir, Siti Zuraidah, Fu, Xianjun, Fan, Tai-Ping, Kuhn, Maximilian A., Sotriffer, Christoph A., Zoufir, Azedine, Li, Xitong, Mervin, Lewis, Berg, Ellen, Polokoff, Mark, Ihlenfeldt, Wolf D., Pretzel, Jette, Alhalabi, Zayan, Fraczkiewicz, Robert, Waldman, Marvin, Clark, Robert D., Shaikh, Neem, Garg, Prabha, Kos, Alexander, Himmler, Hans-Jürgen, Jardin, Christophe, Sticht, Heinrich, Steinbrecher, Thomas B., Dahlgren, Markus, Cappel, Daniel, Lin, Teng, Wang, Lingle, Krilov, Goran, Abel, Robert, Friesner, Richard, Sherman, Woody, Pöhner, Ina A., Panecka, Joanna, Wade, Rebecca C., Schomburg, Karen T., Hilbig, Matthias, Jäger, Christian, Wieczorek, Vivien, Westerhoff, Lance M., Borbulevych, Oleg Y., Demuth, Hans-Ulrich, Buchholz, Mirko, Schmidt, Denis, Rickmeyer, Thomas, Kolb, Peter, Mittal, Sumit, Sánchez-García, Elsa, Nogueira, Mauro S., Oliveira, Tiago B., da Costa, Fernando B., and Schmidt, Thomas J.

Subjects
Physical and Theoretical Chemistry, Library and Information Sciences, Computer Graphics and Computer-Aided Design, Computer Science Applications
Full Text
View/download PDF

15. Analysis of Differential Efficacy and Affinity of GABA A (α1/α2) Selective Modulators.

Author

Ain QU, Owen RM, Omoto K, Torella R, Bulusu KC, Pryde DC, Glen RC, Fuchs JE, and Bender A

Subjects
Amino Acid Sequence, Animals, Benzodiazepines pharmacology, Butyric Acid pharmacology, GABA-A Receptor Agonists pharmacology, Humans, Hydrogen Bonding, Molecular Dynamics Simulation, Molecular Sequence Data, Principal Component Analysis, Protein Structure, Secondary, Receptors, GABA chemistry, Receptors, GABA metabolism
Abstract

Selective modulators of the γ-amino butyric acid (GABA A ) family of receptors have the potential to treat a range of disease states related to cognition, pain, and anxiety. While the development of various α subunit-selective modulators is currently underway for the treatment of anxiety disorders, a mechanistic understanding of the correlation between their bioactivity and efficacy, based on ligand-target interactions, is currently still lacking. In order to alleviate this situation, in the current study we have analyzed, using ligand- and structure-based methods, a data set of 5440 GABA A modulators. The Spearman correlation (ρ) between binding activity and efficacy of compounds was calculated to be 0.008 and 0.31 against the α1 and α2 subunits of GABA receptor, respectively; in other words, the compounds had little diversity in structure and bioactivity, but they differed significantly in efficacy. Two compounds were selected as a case study for detailed interaction analysis due to the small difference in their structures and affinities (ΔpK i (comp1_α1 - comp2_α1) = 0.45 log units, ΔpK i (comp1_α2 - comp2_α2) = 0 log units) as compared to larger relative efficacies (ΔRE (comp1_α1 - comp2_α1) = 1.03, ΔRE (comp1_α2 - comp2_α2) = 0.21). Docking analysis suggested that His-101 is involved in a characteristic interaction of the α1 receptor with both compounds 1 and 2. Residues such as Phe-77, Thr-142, Asn-60, and Arg-144 of the γ chain of the α1γ2 complex also showed interactions with heterocyclic rings of both compounds 1 and 2, but these interactions were disturbed in the case of α2γ2 complex docking results. Binding pocket stability analysis based on molecular dynamics identified three substitutions in the loop C region of the α2 subunit, namely, G200E, I201T, and V202I, causing a reduction in the flexibility of α2 compared to α1. These amino acids in α2, as compared to α1, were also observed to decrease the vibrational and dihedral entropy and to increase the hydrogen bond content in α2 in the apo state. However, freezing of both α1 and α2 was observed in the ligand-bound state, with an increased number of internal hydrogen bonds and increased entropy. Therefore, we hypothesize that the amino acid differences in the loop C region of α2 are responsible for conformational changes in the protein structure compared to α1, as well as for the binding modes of compounds and hence their functional signaling.

Published
2016
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results