# ABCdb

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Biological database

ABCdb Content Description ABCdb database on ABC transporter systems in prokaryotic genomes. Data types captured ATP-binding Cassette (ABC) transporters Organisms prokaryotes Contact Research center University of Toulouse, CNRS Laboratory LMGM Primary citation PMID 16499625 Access Website http://www-abcdb.biotoul.fr/ Tools Web advanced search, BLAST Miscellaneous Curation policy yes - automatic and manual Bookmarkable entities yes

**ABCdb** is a [biological database](/source/Biological_database) for the [adenosine triphosphate-binding cassette (ABC) transporters](/source/ATP-binding_cassette_transporter) encoded by [completely sequenced](/source/Complete_genome_sequencing) [archaeal](/source/Archaea) and [bacterial](/source/Bacteria) [genomes](/source/Genome). These [proteins](/source/Proteins) are important for transporting substances into cells and are found in all living organisms.

## biological function of ABC systems

Most ABC systems function in the [transport of a compound across a membrane](/source/Membrane_transport_protein) into the cell (importer) or to the exterior (exporter), for which the system generates energy by the [hydrolysis](/source/Hydrolysis) of [adenosine triphosphate (ATP)](/source/Adenosine_triphosphate). The ABC transporters occur in all living organisms.

An ABC transporter system consist minimally of two components: an [ATP binding cassette](/source/ATP-binding_domain_of_ABC_transporters) and a [transmembrane domain](/source/Transmembrane_domain_of_ABC_transporters) or [membrane spanning domain](/source/Transmembrane_domain_of_ABC_transporters). These are usually separate [proteins](/source/Protein) or can occur as [protein domains](/source/Protein_domain). A typical ABC transporter is composed of two nucleotide binding domains that energize transport via ATP hydrolysis and of two membrane spanning domains that act as a membrane channel for the substrate. Importers require a solute binding protein that recognizes and binds the [substrate](/source/Substrate_(chemistry)#Biochemistry).

The different partners of an ABC system are generally encoded by neighboring genes.

## Features

The ABC proteins form a [protein superfamily](/source/Protein_superfamily) encoded by large [families](/source/Protein_family) of [paralogous](/source/Paralog#Paralogy) genes. [Sequence analysis](/source/Sequence_analysis) shows that members of the ABC superfamily may have diverged from common ancestral forms and permits to organize ABC proteins into sub-families. The classification of ABC systems into (sub-)families can help to predict which substrates may be transported by the system.

ABCdb is a [public resource](/source/Public_Domain_Resource),[1] from which one can:

- select a strain from the tree of [species](/source/Species) and view all its ABC systems, classified into (sub-)families.

- for a particular ABC (sub-)family, compare all the proteins of completely sequenced prokaryotes.

- use a [protein sequence](/source/Protein_sequence) and [blast](/source/BLAST_(biotechnology)) it against ABCdb to find annotations for similar proteins

## See also

- [Membrane transport protein](/source/Membrane_transport_protein)

- [TCDB](/source/TCDB) Transporter Classification database

- [ABC transporters](/source/ABC_transporters)

- [ATP-binding domain of ABC transporters](/source/ATP-binding_domain_of_ABC_transporters)

- [Transmembrane domain of ABC transporters](/source/Transmembrane_domain_of_ABC_transporters)

## References

1. **[^](#cite_ref-pmid16499625_1-0)** Fichant G, Basse MJ, Quentin Y (Mar 2006). "ABCdb: an online resource for ABC transporter repertories from sequenced archaeal and bacterial genomes". *FEMS Microbiology Letters*. **256** (2): 333–9. [doi](/source/Doi_(identifier)):[10.1111/j.1574-6968.2006.00139.x](https://doi.org/10.1111%2Fj.1574-6968.2006.00139.x). [PMID](/source/PMID_(identifier)) [16499625](https://pubmed.ncbi.nlm.nih.gov/16499625).

## External links

- [http://www-abcdb.biotoul.fr/](http://www-abcdb.biotoul.fr/) ABCdb website

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