BAR-PLUS: the Bologna Annotation Resource Plus for functional and structural annotation of protein sequences

D. Piovesan, P. Luigi Martelli, P. Fariselli, A. Zauli, I. Rossi, R. Casadio
2011 Nucleic Acids Research  
We introduce BAR-PLUS (BAR + ), a web server for functional and structural annotation of protein sequences. BAR + is based on a large-scale genome cross comparison and a non-hierarchical clustering procedure characterized by a metric that ensures a reliable transfer of features within clusters. In this version, the method takes advantage of a largescale pairwise sequence comparison of 13 495 736 protein chains also including 988 complete proteomes. Available sequence annotation is derived from
more » ... niProtKB, GO, Pfam and PDB. When PDB templates are present within a cluster (with or without their SCOP classification), profile Hidden Markov Models (HMMs) are computed on the basis of sequence to structure alignment and are cluster-associated (Cluster-HMM). Therefrom, a library of 10 858 HMMs is made available for aligning even distantly related sequences for structural modelling. The server also provides pairwise query sequence-structural target alignments computed from the correspondent Cluster-HMM. BAR + in its present version allows three main categories of annotation: PDB [with or without SCOP (*)] and GO and/or Pfam; PDB (*) without GO and/or Pfam; GO and/or Pfam without PDB (*) and no annotation. Each category can further comprise clusters where GO and Pfam functional annotations are or are not statistically significant. BAR + is available at
doi:10.1093/nar/gkr292 pmid:21622657 pmcid:PMC3125743 fatcat:abdczhrn4fgwrphmutaxycsrku