Protein Shape Determines Function A protein’s specific function depends on its shape and distribution of functional groups. lysozyme Protein Structure ÿPrimary ÿPolypeptide sequence ÿSecondary ÿFolding coils & pleats ÿTertiary ÿComplete 3-D shape ...
It is often desirable to be able to specify a protein fold during design (such as triose-phosphate isomerase (TIM) barrels or cavity-containing NTF2s for small molecule binder and enzyme design32,33), and thus we further fine-tuned RFdiffusion to condition on secondary structure and/or fold...
These processes are particularly pronounced in bacterial and archaeal genomes where frequent horizontal gene transfers (HGT) shape genomic organization and diversity11,12. Thus, there exists an inherent evolutionary linkage between genes, their genomic context, and gene function13,14,15, which can be ...
Bc28.1 presents a roughly ovoid shape with a main axis length and diameter of roughly 65 and 30 Å, respectively (Fig. 9B). Like Bd37, it falls into the category of the mainly α folds (24), consisting of seven antiparallel helices. However, the topology of the two proteins is marked...
Docking based upon grid-scoring sum: In the small areas around the interface regions identified by BCs, a grid-scoring method was used to search for energetically stable configurations, considering the 3D shape complementarity between the receptor and the ligand. Grids were generated on surfaces of...
(bottom inside-of-protein view). In the bottom view, a group of chemically relevant descriptors, instead of the protein sequences, are used to better capture the structure-function relationship of the protein. HIGH-PPI examines both outside-of-protein and inside-of-protein of the human ...
The folding is further driven by non-specific hydrophobic interactions that ultimately determine the protein’s unique three-dimensional shape or tertiary structure and its function. The quaternary structure is a result of association of several protein chains into a specific spatial arrangement. Proteins...
7.5.2 Outline the difference between fibrous and globular proteins, with reference to two examples of each protein type. Protein shape can be categorised as either fibrous or globular. Fibrous proteins tend to be elongated, physically tough and insoluble in water. Collagen found in the skin and...
1f, g). These results suggest that the WSME-L models may pave the way for predicting protein folding mechanisms from native structures without the limitations of size and shape, and will be a useful tool for protein folding prediction in the post-AlphaFold era. Results WSME-L model In the ...
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