What can be solved by using ExPASy?

What can be solved by using ExPASy?

ExPASy: a resource portal that provide information about genomics, proteomics, structure analysis, systems biology, evolutionary biology, population genetics, transcriptomics, glycomics, medicinal chemistry, etc.

What is PROSITE ExPASy?

PROSITE consists of documentation entries describing protein domains, families and functional sites as well as associated patterns and profiles to identify them [More… / References / Commercial users ].

What is domain in a protein?

A protein domain is a region of the protein’s polypeptide chain that is self-stabilizing and that folds independently from the rest. Each domain forms a compact folded three-dimensional structure. Domains often form functional units, such as the calcium-binding EF hand domain of calmodulin.

What is a protein domain example?

Domains are distinct functional and/or structural units in a protein. For example, Src homology 3 (SH3) domains are small domains of around 50 amino acid residues that are involved in protein-protein interactions. SH3 domains have a characteristic 3D structure (Figure 4).

What is the ExPASy tool in bioinformatics?

It is an extensible and integrative portal which provides access to over 160 databases and software tools, developed by SIB Groups and supporting a range of life science and clinical research domains, from genomics, proteomics and structural biology, to evolution and phylogeny, systems biology and medical chemistry.

How many categories of resources are there in ExPASy?

The new portal provides access to over 130 resources (cf. Appendix A1 for the full list of resources) from more than 20 different SIB groups.

How many categories of resources are there in Expasy?

How do I know which reading frame is right for me?

To identify an open reading frame:

1. Locate a sequence corresponding to a start codon in order to determine the reading frame – this will be ATG (sense strand)
2. Read this sequence in base triplets until a stop codon is reached (TGA, TAG or TAA)

What information is stored in the PROSITE database?

PROSITE is a protein database. It consists of entries describing the protein families, domains and functional sites as well as amino acid patterns and profiles in them. These are manually curated by a team of the Swiss Institute of Bioinformatics and tightly integrated into Swiss-Prot protein annotation.

What are PROSITE patterns?

INTRODUCTION. PROSITE is an annotated collection of motif descriptors dedicated to the identification of protein families and domains. The motif descriptors used in PROSITE are either patterns or profiles, which are derived from multiple alignments of homologous sequences.

How do I search for conserved domains within a protein or nucleotide?

Search for Conserved Domains within a protein or coding nucleotide sequence. Enter protein or nucleotide query as accession, gi, or sequence in FASTA format. For multiple protein queries, use Batch CD-Search.

What is findpept used for?

FindPept tool. FindPept can identify peptides that result from unspecific cleavage of proteins from their experimental masses, taking into account artefactual chemical modifications, post-translational modifications (PTM) and protease autolytic cleavage.

How do I identify peptides from protein samples?

FindPept tool FindPept can identify peptides that result from unspecific cleavage of proteins from their experimental masses, taking into account artefactual chemical modifications, post-translational modifications (PTM) and protease autolytic cleavage. If you wish to take into account only specific cleavage, please use FindMod instead.