Protein Secondary Structure Database (PSSD) is a database that incorporates sequences of secondary structure elements of all proteins which their three dimensional structures are defined by experimental methods such as NMR-Spectroscopy or X-Ray Crystallography and their structural data exists in Brookhav...
Protein Topology Graph Library (PTGL;http://ptgl.zib.de) aims at providing a database on protein secondary structure topologies, including search facilities, the visualization as intuitive topology diagrams as well as in the 3D structure, and additional information. Secondary structure-based protein ...
The fastest way to determine the function is to use the sequence of its building blocks (the primary structure) alone, and search this sequence against a database of annotated structures where the f...How well are protein structures annotated in secondary databases - Rother, Michalsky, et al....
Machine learning techniques play a central role in the field of protein structure prediction. Numerous protein data are used to train models to learn and extract information to predict protein structure and function. Currently, widely used methods can be divided into two main categories: machine lear...
Protein secondary structure prediction is one of the most important and challenging problems in bioinformatics. Machine learning techniques have been applied to solve the problem and have gained substantial success in this research area. However there is
The AlphaFold Protein Structure Database (AlphaFold DB, https://alphafold.ebi.ac.uk) is an openly accessible, extensive database of high-accuracy protein-structure predictions. Powered by AlphaFold v2.0 of DeepMind, it has enabled an unprecedented expansion of the structural coverage of the known ...
1. DIP (database of interacting proteins) http://dip.doe-mbi.ucla.edu/dip/Main.cgi在页面点击 Search by:[protein] [sequence] [motif] [article] [pathBLAST] 选项。如果搜索配体-受体相互作用,进入DLRP。 经实验证实的PPI,高度可信 2. BIND (biomolecular interaction network database) ...
0.3.2 Structure Database DatabaseDescription PDB The Protein Data Bank (PDB) is a database of 3D structural data of large biological molecules, such as proteins and nucleic acids. These data are gathered using experimental methods such as X-ray crystallography, NMR spectroscopy, or cryo-electron...
(local) Shape maintained by intramolecular H bonding between -C=O and H-N- sheet Several protein chains Shape maintained by intramolecular H bonding between chains Non-local on protein sequence b-sheet (parallel, anti-parallel) Classification of secondary structure Defining features Dihedral angles ...
Circular dichroism spectroscopy is a widely used technique to analyze the secondary structure of proteins in solution. Predictive methods use the circular dichroism spectra from proteins of known tertiary structure to assess the secondary structure conte