After the first binding event of a bivalent molecule, subsequent binding events are controlled by the effective concentration and the monovalent KD analogous to intramolecular binding. The effective concentration thus controls the population of singly bound protein from which the full dissociation must ...
One α-subunit and one β-subunit will come together to form a heterodimer, and two of these heterodimers will interact to form one hemoglobin molecule. Hemoglobin can therefore be thought of as a dimer of dimers, which come together to give the final protein its quaternary structure. View ...
In particular, in the case of the amyloidogenic proteins, in order to further reduce the concentration of the droplets on the surface for single-molecule studies, were sprayed from a longer distance, of approximately 4 cm, which was in average 2 cm longer than in the case of fluorescein...
Novel enzymes and small-molecule binders From the 711,705 clusters without annotations (dark clusters), we selected 33,842 clusters with the highest average AlphaFold2 prediction confidence (that is, average pLDDT >90). For each, we picked the member with the highest confidence for further in...
Protein surfaces and interiors are in red and blue, respectively, and the interface is viewed in space-fill mode to distinguish it from other parts of the protein molecule. To view protein structures, the Chime plug-in and a Java runtime environment with Java 3D 1.3.1+ are required. The ...
Protein structure comparison is one of the most widely performed tasks in bioinformatics. However, currently used methods have problems with the so-called "difficult similarities", including considerable shifts and distortions of structure, sequential swaps and circular permutations. There is a demand for...
The cryo-electron microscopy structure reveals that the SARS-CoV-2 S protein adopts two isoforms, the prefusion and postfusion [27]. The prefusion isoform is further classified into three conformations, closed (PDB id: 6VXX), open RBD up (PDB id: 6VYB), and two RBD up (PDB id: 6X2B...
4). In the peptidases S8 subfamily, the binding of calcium ion to one or more calcium-binding sites in the enzyme molecule is essential for correct folding and structure stability besides enhancing the thermal stability of the proteases which contribute to their resistance against proteolysis, ...
To provide a measure for the number of slncRNA molecules within the granules, we computed the ratio between the mean granule fluorescence and the mean burst amplitude, assuming the average burst corresponds to one slncRNA molecule bound by proteins. The results (Fig. 5a, b) show that type ...
reduced by the addition of two electrons (after two “light” reactions) and two protons have been added (see below for further information), the resulted weakly bound QBH2 (which is nothing else but a PQH2) is released in the membrane and is replaced by a PQ molecule from the PQ pool...