Appropriate Usage of TMBpro
TMBpro assumes that the sequence is for a TMB protein. TMBpro does not contain
a screening component or predict the probability that a given protein really is
a TMB protein. It is a specialized predictor and not a general purpose tertiary structure predictor.
For any protein you submit, including globular, TMBpro will predict the secondary structure, contacts,
and then build a model utilizing available TMB templates. If the protein is not a TMB protein then
the model is destined to be wrong. To use TMBpro appropriately you should first have some evidence
that your sequence is a TMB protein.
TMB Screening Methods
A variety of methods have been developed for discriminating TMB from non-TMB proteins.
We have confirmed the following methods were functioning as of 11-24-2008:
Bagos,P. et al. (2004) Nucleic Acids Res., 32, W400-W404.
Garrow,A. et al. (2005) Nucleic Acids Res., 33, W188-W192.
Gromiha,M. et al. (2005) Nucleic Acids Res., 33, W164-W167.
Zhai.Y and Saier,M. (2002) Protein Sci., 11, 2196-2207.
Contact TMBpro Administrator: firstname.lastname@example.org
Institute for Genomics and Bioinformatics
School of Information & Computer Science
University of California Irvine