MimoDB 2.0: a mimotope database and beyond

Mimotopes are peptides with affinities to given targets. They are readily obtained through biopanning against combinatorial peptide libraries constructed by phage display and other display technologies such as mRNA display, ribosome display, bacterial display and yeast display. Mimotopes have been u...

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Bibliographic Details
Published in:Nucleic acids research Vol. 40; no. D1; pp. D271 - D277
Main Authors: Huang, Jian, Ru, Beibei, Zhu, Ping, Nie, Fulei, Yang, Jun, Wang, Xuyang, Dai, Ping, Lin, Hao, Guo, Feng-Biao, Rao, Nini
Format: Journal Article
Language:English
Published: England Oxford University Press 01.01.2012
Subjects:
Databases, Protein
Peptides - chemistry
Peptides - metabolism
Protein Interaction Mapping
Sequence Alignment
Sequence Analysis, Protein
Software
User-Computer Interface
ISSN:0305-1048, 1362-4962, 1362-4962
Online Access:Get full text
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Summary:Mimotopes are peptides with affinities to given targets. They are readily obtained through biopanning against combinatorial peptide libraries constructed by phage display and other display technologies such as mRNA display, ribosome display, bacterial display and yeast display. Mimotopes have been used to infer the protein interaction sites and networks; they are also ideal candidates for developing new diagnostics, therapeutics and vaccines. However, such valuable peptides are not collected in the central data resources such as UniProt and NCBI GenPept due to their 'unnatural' short sequences. The MimoDB database is an information portal to biopanning results of random libraries. In version 2.0, it has 15 633 peptides collected from 849 papers and grouped into 1818 sets. Besides the core data on panning experiments and their results, broad background information on target, template, library and structure is included. An accompanied benchmark has also been compiled for bioinformaticians to develop and evaluate their new models, algorithms and programs. In addition, the MimoDB database provides tools for simple and advanced searches, structure visualization, BLAST and alignment view on the fly. The experimental biologists can easily use the database as a virtual control to exclude possible target-unrelated peptides. The MimoDB database is freely available at http://immunet.cn/mimodb.
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The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors.
ISSN:0305-1048
1362-4962
1362-4962
DOI:10.1093/nar/gkr922