Results 81 to 90 of about 317,356 (295)

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

Review

, 2020
The chalcogen elements oxygen, sulfur, and selenium are essential constituents of side chain functions of natural amino acids. Conversely, no structural and biological function has been discovered so far for the heavier and more metallic tellurium ...
Agh R, Arai K, Baskakov IV, Creighton TE, Dittmer K, Du Vigneaud V, Janeček J, Metanis N, Musiol HJ, Muttenthaler M, Nygard B, O'Donnell ME, Welch M, Yang F   +13 more
core   +1 more source

Synthesis of Simplified Azasordarin Analogs as Potential Antifungal Agents [PDF]

, 2019
A new series of simplified azasordarin analogs was synthesized using as key steps a Diels–Alder reaction to generate a highly substituted bicyclo[2.2.1]heptane core, followed by a subsequent nitrile alkylation.
Dockendorff, Chris, Wu, Yibiao
core   +4 more sources

Protein tertiary structure and the myoglobin phase diagram [PDF]

Scientific Reports, 2019
AbstractWe develop an effective theory approach to investigate the phase properties of globular proteins. Instead of interactions between individual atoms or localized interaction centers, the approach builds directly on the tertiary structure of a protein. As an example we construct the phase diagram of (apo)myoglobin with temperature (T) and acidity (
Alexander Begun, Alexander Molochkov, Antti J. Niemi   +2 more
openaire   +2 more sources

The ubiquitin ligase RNF115 is required for the clearance of damaged lysosomes

FEBS Letters, EarlyView.
Upon lysosomal rupture, an E3 ubiquitin ligase RNF115 translocates from the cytosol to the damaged lysosomal membrane. Moreover, RNF115 depletion impairs the clearance of damaged lysosomes, identifying it as a key regulator of lysosomal quality control.
Sae Nakanaga, Toshiki Takahashi, Akiko Kuma, Hiroyuki Kawahara   +3 more
wiley   +1 more source

A tractable genotype-phenotype map for the self-assembly of protein quaternary structure

, 2013
The mapping between biological genotypes and phenotypes is central to the study of biological evolution. Here we introduce a rich, intuitive, and biologically realistic genotype-phenotype (GP) map, that serves as a model of self-assembling biological ...
Ahnert, Sebastian E., Greenbury, Sam F., Johnston, Iain G., Louis, Ard A.   +3 more
core   +1 more source

ProKware: integrated software for presenting protein structural properties in protein tertiary structures [PDF]

Nucleic Acids Research, 2006
Protein tertiary structure plays an essential role in deciphering protein functions, especially protein structural properties, including domains, active sites and post-translational modifications. These properties typically yield useful clues for understanding protein functions.
Hung, Jui-Hung, Huang, Hsien-Da, Lee, Tzong-Yi   +2 more
openaire   +2 more sources

Organizing the interface—Plasma membrane architecture and receptor dynamics in virus‐cell interactions

FEBS Letters, EarlyView.
Plasma membranes contain dynamic nanoscale domains that organize lipids and receptors. Because viruses operate at similar scales, this architecture shapes early infection steps, including attachment, receptor engagement, and entry. Using influenza A virus and HIV‐1 as examples, we highlight how receptor nanoclusters, multivalent glycan interactions ...
Jan Schlegel, Christian Sieben
wiley   +1 more source

Comparative functional genomics approach for the annotation of proteins in Unclassified Halophilic archaeon DL31 [PDF]

, 2012
The structure, function and sub-cellular location prediction for the unknown proteins from Unclassified Halophilic archaeon DL31 were carried out for characterization of the proteins in their respective families.
E Nakkeeran, N S. Sardeshmukh, S G. Sanmukh   +2 more
core   +1 more source

Role of the Subunits Interactions in the Conformational Transitions in Adult Human Hemoglobin: an Explicit Solvent Molecular Dynamics Study

, 2012
Hemoglobin exhibits allosteric structural changes upon ligand binding due to the dynamic interactions between the ligand binding sites, the amino acids residues and some other solutes present under physiological conditions.
Baldwin J., Crespo A., Darden T., Essmann U., Fermi G., Gao J., Gelin B. R., Giovanni Bussi, Hess B., Hess B., Hoover W. G., Hornak V., Janin J., Jonathan O. Babalola, Jorgensen W. L., Kim K. W., Kovesi I., Laberge M., Lepeshkevich S. V., Lukin J. A., Mouawad L., Mouawad L., Mozzarelli A., Mozzarelli A., Olaniyi K. Yusuff, Parrinello M., Perutz M. F, Perutz M. F., Perutz M. F., Perutz M. F., Ramadas N., Rivetti C., Rodgers K. R., Safo M. K., Sahu S. C., Sahu S. C., Saito M., Shaanan B., Shibayama N., Silva M. M., Simone Raugei, Srinivasan R., Van der Spoel D., Xu Y., Yamada K.   +44 more
core   +1 more source