Name
Title | ||
|---|---|---|
The channel in transporters is formed by residues that are rare in transmembrane helices. |
Abstract | ||
|---|---|---|
Transmembrane transport is an essential component of the cell life. Many genes encoding known or putative transport proteins are found in bacterial genomes. In most cases their substrate specificity is not experimen- tally determined and only approximately predicted by comparative genomic analysis. Even less is known about the 3D structure of transporters. Nevertheless, the published experimental data demonstrate that channel-forming resi- dues determine the substrate specificity of secondary transporters and analysis of these residues would provide bet- ter understanding of the transport mechanism. We developed a simple computational method for identification of channel-forming residues in transporter se- quences. It is based on the analysis of amino acids frequencies in bacterial secondary transporters. We applied this method to a variety of transmembrane proteins with resolved 3D structure. The predictions are in sufficiently good agreement with the real protein structure. |
Year | Venue | Keywords |
|---|---|---|
2003 | In Silico Biology | statistical analysis,bacterial genome,protein structure,transmembrane protein,amino acid,membrane protein,comparative genomics |
Field | DocType | Volume |
Transmembrane domain,Biology,Transporter,Amino acid,Biochemistry,Transmembrane protein,Bioinformatics,Genetics,Bacterial genome size,Transport protein,Protein structure,Membrane transport | Journal | 3 |
Issue | ISSN | Citations |
1-2 | 1386-6338 | 1 |
PageRank | References | Authors |
0.35 | 1 | 5 |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Olga V. Kalinina | 1 | 56 | 5.61 |
| Vsevolod Makeev | 2 | 90 | 9.70 |
| Sutormin Roman A | 3 | 4 | 0.74 |
| M S Gelfand | 4 | 343 | 71.47 |
| Aleksandra B. Rakhmaninova | 5 | 33 | 2.84 |