FAMSBASE: Modeling Database of 161 Genomes
نویسندگان
چکیده
We had participated in the CASP (Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction) that is the competition of the protein structure prediction in 2000 and 2002. Our server were estimated almost the best as the individual homology modeling server in the CAFASP3 (Critical Assessment of Fully Automated Structure Prediction) that is the full automatic homology modeling section of CASP5. In this competition we used homology modeling software FAMS [1] (Full automatic protein modeling system) that we had been developed for several years [3]. Thus, usefulness of the software FAMS was clearly shown in these competitions. We also have developed FAMSBASE that is web interface of FAMS model structure database. In this article we describe that proteins coded in the 161 species genomes were modeled. The commercial version of FAMS modeling software service is available in In-Silico Sciences, Inc. (http://www.pd-fams.com). FAMSBASE is available in http://famsbase.bio.nagoya-u.ac. jp/ [4] or http://www.pdfams.jbic.or.jp/.
منابع مشابه
FAMS and FAMSBASE: Modeling of All the Genomes and Database
We had participated in the CASP4 (Fourth Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction) that is the competition of the protein structure prediction in 2000 [3]. Our server were estimated almost the best in the CAFASP2 (Critical Assessment of Fully Automated Structure Prediction) that is the full automatic homology modeling section of CASP4 [...
متن کاملEnlarged FAMSBASE: protein 3D structure models of genome sequences for 41 species
Enlarged FAMSBASE is a relational database of comparative protein structure models for the whole genome of 41 species, presented in the GTOP database. The models are calculated by Full Automatic Modeling System (FAMS). Enlarged FAMSBASE provides a wide range of query keys, such as name of ORF (open reading frame), ORF keywords, Protein Data Bank (PDB) ID, PDB heterogen atoms and sequence simila...
متن کاملEvaluation of First and Second Markov Chains Sensitivity and Specificity as Statistical Approach for Prediction of Sequences of Genes in Virus Double Strand DNA Genomes
Growing amount of information on biological sequences has made application of statistical approaches necessary for modeling and estimation of their functions. In this paper, sensitivity and specificity of the first and second Markov chains for prediction of genes was evaluated using the complete double stranded DNA virus. There were two approaches for prediction of each Markov Model parameter,...
متن کاملgb4gv: a genome browser for geminivirus
BACKGROUND Geminiviruses (family Geminiviridae) are prevalent plant viruses that imperil agriculture globally, causing serious damage to the livelihood of farmers, particularly in developing countries. The virus evolves rapidly, attributing to its single-stranded genome propensity, resulting in worldwide circulation of diverse and viable genomes. Genomics is a prominent approach taken by resear...
متن کامل