Results 31 to 40 of about 6,498,873 (334)

Conformational Dependence of a Protein Kinase Phosphate Transfer Reaction

, 2004
Atomic motions and energetics for a phosphate transfer reaction catalyzed by the cAMP-dependent protein kinase (PKA) are calculated by plane-wave density functional theory, starting from structures of proteins crystallized in both the reactant ...
Austin, B. H. McMahon, C.-S. Tung, Cheng, Clementi, Frauenfelder, Frauenfelder, G. Henkelman, Hanggi, Johnson, Johnson, M. X. LaBute, Madhusudan, McMahon, N  meth, P. W. Fenimore, Pearson, Pinna, Smith, Songyang, Valiev, Yang, Zheng   +22 more
core   +2 more sources

Phosphorylation of huntingtin at residue T3 is decreased in Huntington’s disease and modulates mutant huntingtin protein conformation

Proceedings of the National Academy of Sciences of the United States of America, 2017
Significance The findings in this manuscript report on the identification of a posttranslational modification in the huntingtin protein (phosphorylation on residue T3 in the N17 region of the protein), which can revert the conformational effects of the ...
Cristina Cariulo, Lucia Azzollini, Margherita Verani, Paola Martufi, R. Boggio, Anass Chiki, Sean M. Deguire, Marta Cherubini, S. Ginés, J. L. Marsh, P. Conforti, E. Cattaneo, I. Santimone, F. Squitieri, Hilal A. Lashuel, Lara Petricca, A. Caricasole   +16 more
semanticscholar   +1 more source

CLP-based protein fragment assembly

, 2010
The paper investigates a novel approach, based on Constraint Logic Programming (CLP), to predict the 3D conformation of a protein via fragments assembly. The fragments are extracted by a preprocessor-also developed for this work- from a database of known
AGOSTINO DOVIER, ALESSANDRO DAL PALÙ, Dal Palù, Dotu, ENRICO PONTELLI, FEDERICO FOGOLARI, Levinthal   +6 more
core   +1 more source

VAMP721 conformations unmask an extended motif for K+ channel binding and gating control [PDF]

, 2016
Soluble N-ethylmaleimide-sensitive factor attachment protein receptor (SNARE) proteins play a major role in membrane fusion and contribute to cell expansion, signaling, and polar growth in plants.
Blatt, Mike R., Donald, Naomi Alice, Karnik, Rucha, Waghmare, Sakharam, Zhang, Ben   +4 more
core   +2 more sources

The social network (of protein conformations) [PDF]

Proceedings of the National Academy of Sciences, 2011
Proteins possess thousands of degrees of freedom, and yet, they can rapidly and reliably find their way into well-defined folded configurations (1). In the cell, these folded proteins carry out highly specific motions critical to cargo transport and force transduction, energy generation, and catalysis.
John Chodera, Vijay S. Pande
openaire   +3 more sources

p97 Disease Mutations Modulate Nucleotide-Induced Conformation to Alter Protein-Protein Interactions. [PDF]

, 2016
The AAA+ ATPase p97/VCP adopts at least three conformations that depend on the binding of ADP and ATP and alter the orientation of the N-terminal protein-protein interaction (PPI) domain into up and down conformations.
Arkin, Michelle, Bulfer, Stacie, Chou, Tsui-Fen   +2 more
core  

Exploring the Levinthal limit in protein folding [PDF]

, 2017
According to the thermodynamic hypothesis, the native state of proteins is uniquely defined by their amino acid sequence. On the other hand, according to Levinthal, the native state is just a local minimum of the free energy and a given amino acid ...
B Fazi, B Hess, C Anfınsen, C Levinthal, C Orengo, D Baker, D Case, D van der Spoel, H Berman, H Gouda, J Sohl, JD Bryngelson, K Dill, L Cruzeiro, L Cruzeiro, L Cruzeiro, Leonor Cruzeiro, Léo Degrève, P Gettins, T Gallagher, T Lazaridis, TR Hynes, W Humphrey, W van Gunsteren   +23 more
core   +1 more source

Insights into PI3K/AKT signaling in B cell development and chronic lymphocytic leukemia

FEBS Letters, EarlyView.
This Review explores how the phosphoinositide 3‐kinase and protein kinase B pathway shapes B cell development and drives chronic lymphocytic leukemia, a common blood cancer. It examines how signaling levels affect disease progression, addresses treatment challenges, and introduces novel experimental strategies to improve therapies and patient outcomes.
Maike Buchner
wiley   +1 more source

Computational Protein Design Using AND/OR Branch-and-Bound Search

, 2015
The computation of the global minimum energy conformation (GMEC) is an important and challenging topic in structure-based computational protein design.
Wu, Yuexin, Zeng, Jianyang, Zhou, Yichao
core   +1 more source

Molecular modeling of an antigenic complex between a viral peptide and a class I major histocompatibility glycoprotein [PDF]

, 1992
Computer simulation of the conformations of short antigenic peptides (&lo residues) either free or bound to their receptor, the major histocompatibility complex (MHC)- encoded glycoprotein H-2 Ld, was employed to explain experimentally determined ...
Allen, Babbit, Bjorkman, Buus, Chen, Cramer, Del Val, DeLisi, Falk, Fauchère, Garrett, Jorgensen, Kidera, Kourilsky, Krug, Lambert, Lambert, Lambert, Margalit, Maryanski, Owen, Reddehase, Reddehase, Reddehase, Rötzschke, Saper, Schwartz, Serrano, Sette, Tirado-Rives, Townsend, Townsend, Townsend, Unanue, Van Bleek, Weiner, Wendoloski, Wold, Zinkernagel   +38 more
core   +1 more source