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This article will explain in detail what is the use of SMART database for you. The editor thinks it is very practical, so I share it with you as a reference. I hope you can get something after reading this article.

SMART is a database of protein domains. The latest version of the database is v8, which contains more than 1300 protein domains and covers proteins from many databases such as uniprot, ensembl and so on. The official website is as follows

Http://smart.embl-heidelberg.de/

The database has the following two modes

Normal

Genomic

The normal mode contains all the protein information of uniprot and ensembl, these protein sequences are redundant, and the genomic mode only contains the information of species with complete proteome.

The two modes can be switched through the SETUP menu, and the mode can be identified by color, as shown below

Through the Search SMART button in the upper right corner, you can retrieve the database and support the following two retrieval methods: protein name and domain.

Enter the protein ID in uniprot or ensembl database to search. The example is as follows, and search according to the protein IDC1S_HUMAN in uniprot database.

Http://smart.embl-heidelberg.de/smart/show_motifs.pl?ID=C1S_HUMAN

The retrieval page contains the following results

1. Domian structure diagram

As can be seen from the figure, the protein includes the following five domain

CUB

EGF_CA

CCP

Tryp_SPc

The location information of each domain is also provided.

two。 Protein interaction

Provides information about protein-protein interactions from the STRING database, as shown below

3. Pathway information

Provides access annotation information for Metabolic pathway and Kegg pathway databases, as shown below

4. Orthology group comments

Provides annotation information from the eggNOG database, as shown below

5. Post-transcriptional modification

Post-transcriptional modification information from the PTM database is provided as follows

Search by domain. The example is as follows, and the search is based on the domian name CUB. For each domain, it is uniquely identified by a number starting with SM, provides associated information with other databases, and supports downloading the results of multiple sequence alignments.

This is the end of this article on "what is the use of SMART database". I hope the above content can be helpful to you, so that you can learn more knowledge. if you think the article is good, please share it out for more people to see.

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