Name
Title | ||
|---|---|---|
IMAAAGINE: a webserver for searching hypothetical 3D amino acid side chain arrangements in the Protein Data Bank. |
Abstract | ||
|---|---|---|
We describe a server that allows the interrogation of the Protein Data Bank for hypothetical 3D side chain patterns that are not limited to known patterns from existing 3D structures. A minimal side chain description allows a variety of side chain orientations to exist within the pattern, and generic side chain types such as acid, base and hydroxyl-containing can be additionally deployed in the search query. Moreover, only a subset of distances between the side chains need be specified. We illustrate these capabilities in case studies involving arginine stacks, serine-acid group arrangements and multiple catalytic triad-like configurations. The IMAAAGINE server can be accessed at http://mfrlab.org/grafss/imaaagine/. |
Year | DOI | Venue |
|---|---|---|
2013 | 10.1093/nar/gkt431 | NUCLEIC ACIDS RESEARCH |
Keywords | Field | DocType |
amino acids,molecular dynamics simulation,internet,protein conformation | Web search query,Biology,Amino acid,Biochemistry,Computer network,Genetics,Protein Data Bank,Side chain,Protein structure,Web server | Journal |
Volume | Issue | ISSN |
41 | W1 | 0305-1048 |
Citations | PageRank | References |
2 | 0.37 | 8 |
Authors | ||
4 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Nurul Nadzirin | 1 | 22 | 1.95 |
| PETER WILLETT | 2 | 3421 | 592.93 |
| Peter J. Artymiuk | 3 | 203 | 19.62 |
| Mohd Firdaus Raih | 4 | 43 | 4.25 |