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Database resources of the National Center for Biotechnology Information
TLDR
The Entrez system provides search and retrieval operations for most of these data from 39 distinct databases. Expand
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CDD: a database of conserved domain alignments with links to domain three-dimensional structure
TLDR
The Conserved Domain Database (CDD) is a compilation of multiple sequence alignments representing protein domains conserved in molecular evolution. Expand
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CDD: a curated Entrez database of conserved domain alignments
TLDR
The Conserved Domain Database (CDD) is now indexed as a separate database within the Entrez system and linked to other Entrez databases such as MEDLINE(R). Expand
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Database resources of the National Center for Biotechnology Information
TLDR
In addition to maintaining the GenBank(R) nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides data analysis and retrieval resources for the data in GenBank and other biological data made available through NCBI's website. Expand
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Deciphering Protein–Protein Interactions. Part II. Computational Methods to Predict Protein and Domain Interaction Partners
TLDR
In this review we describe different approaches to predict protein interaction partners as well as highlight recent achievements in the prediction of specific domains mediating protein-protein interactions. Expand
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Modeling the evolution of protein domain architectures using maximum parsimony.
Domains are basic evolutionary units of proteins and most proteins have more than one domain. Advances in domain modeling and collection are making it possible to annotate a large fraction of knownExpand
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Phosphorylation in protein-protein binding: effect on stability and function.
Posttranslational modifications offer a dynamic way to regulate protein activity, subcellular localization, and stability. Here we estimate the effect of phosphorylation on protein binding andExpand
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Surface film effect on short wind waves
The results are presented of experiments with artificial slicks carried out at different wind velocities and with different films in natural conditions. In particular, variations of the wave numberExpand
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IBIS (Inferred Biomolecular Interaction Server) reports, predicts and integrates multiple types of conserved interactions for proteins
TLDR
We have recently developed the Inferred Biomolecular Interaction Server (IBIS) and database, which reports, predicts and integrates different types of interaction partners and locations of binding sites in proteins based on the analysis of homologous structural complexes. Expand
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Combination of threading potentials and sequence profiles improves fold recognition.
Using a benchmark set of structurally similar proteins, we conduct a series of threading experiments intended to identify a scoring function with an optimal combination of contact-potential andExpand
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