Results 91 to 100 of about 936,446 (303)
Frontiers in Molecular Biosciences, 2021 LuxR, a bacterial quorum sensing-related transcription factor that responds to the signaling molecule 3-oxo-hexanoyl-homoserine lactone (3OC6-HSL). In this study, we employed molecular dynamics simulation and the Molecular Mechanics Generalized Born ...
Jinyu Li +14 more
doaj +1 more source
MEGADOCK-Web-Mito: human mitochondrial protein-protein interaction prediction database [PDF]
arXiv, 2021 Mitochondrial diseases are largely caused by dysfunction in mitochondrial proteins. However, annotations of human mitochondrial proteins are scattered across various public databases and individual studies. To facilitate research aimed at elucidating mitochondrial functions, we constructed the MEGADOCK-Web-Mito database as a protein-protein interaction
arxiv
Effects of ligand binding on the internal dynamics of maltose‐binding protein [PDF]
European Journal of Biochemistry, 1999 Ligand binding to proteins often causes large conformational changes. A typical example is maltose‐binding protein (MBP), a member of the family of periplasmic binding proteins of Gram‐negative bacteria. Upon binding of maltose, MBP undergoes a large structural change that closes the binding cleft, i.e.
Klaus Döring +3 more
openaire +3 more sources
Knowledge-based energy functions for computational studies of proteins [PDF]
, 2006 This chapter discusses theoretical framework and methods for developing knowledge-based potential functions essential for protein structure prediction, protein-protein interaction, and protein sequence design. We discuss in some details about the Miyazawa-Jernigan contact statistical potential, distance-dependent statistical potentials, as well as ...
arxiv +1 more source
Small antimicrobial resistance proteins (SARPs): Small proteins conferring antimicrobial resistance [PDF]
arXiv, 2023 Small open reading frames are understudied as they have been historically excluded from genome annotations. However, evidence for the functional significance of small proteins in various cellular processes accumulates. Proteins with less than 70 residues can also confer resistance to antimicrobial compounds, including intracellularly-acting protein ...
arxiv
The regulatory and transcriptional landscape associated with carbon utilization in a filamentous fungus. [PDF]
, 2020 Filamentous fungi, such as Neurospora crassa, are very efficient in deconstructing plant biomass by the secretion of an arsenal of plant cell wall-degrading enzymes, by remodeling metabolism to accommodate production of secreted enzymes, and by enabling ...
Benz, J Philipp +15 more
core +3 more sources
Free-energy distribution of binary protein-protein binding suggests cross-species interactome differences [PDF]
PNAS 103, 11527- 11532 (2006); Aug 1, 2006 no 31, 2006 Major advances in large-scale yeast two hybrid (Y2H) screening have provided a global view of binary protein-protein interactions across species as dissimilar as human, yeast, and bacteria. Remarkably, these analyses have revealed that all species studied have a degree distribution of protein-protein binding that is approximately scale-free (varies as ...
arxiv +1 more source
Several Affinity Tags Commonly Used in Chromatographic Purification
Journal of Analytical Methods in Chemistry, 2013 Affinity tags have become powerful tools from basic biological research to structural and functional proteomics. They were widely used to facilitate the purification and detection of proteins of interest, as well as the separation of protein complexes ...
Xinyu Zhao, Guoshun Li, Shufang Liang
doaj +1 more source
Protein Inference and Protein Quantification: Two Sides of the Same Coin [PDF]
arXiv, 2012 Motivation: In mass spectrometry-based shotgun proteomics, protein quantification and protein identification are two major computational problems. To quantify the protein abundance, a list of proteins must be firstly inferred from the sample. Then the relative or absolute protein abundance is estimated with quantification methods, such as spectral ...
arxiv
Structural diversity in the type IV pili of multidrug-resistant Acinetobacter [PDF]
, 2016 Acinetobacter baumannii is a Gram-negative coccobacillus found primarily in hospital settings that has recently emerged as a source of hospital-acquired infections. A.
Feldman, Mario F +10 more
core +3 more sources