Sonnhammer EL,Eddy SR,Durbin R.Pfam: a comprehensive database of protein domain families based on seed alignments. Proteins . 1997Sonnhammer ELL, Eddy SR, Durbin R. Pfam: a compre- hensive database of protein domain families based on seed alignments. Proteins 1997;28:405-20....
One of the main challenges when constructing such a database is to simultaneously satisfy the conflicting demands of completeness on the one hand and quality of alignment and domain definitions on the other. The latter properties are best dealt with by manual approaches, whereas completeness in ...
PROTEINS: Structure, Function, and Genetics 28:405–420 (1997) Pfam: A Comprehensive Database of Protein Domain Families Based on Seed Alignments Sonnhammer EL,Eddy SR,Durbin R.Pfam: a comprehensive database of protein domain families based on seed alignments.Proteins. 1997Sonnhammer, E.L., ...
Pfam, a protein families database, is one such database. In this chapter, the use of the web interface to Pfam and the resources provided (annotation, sequence alignments, phylogenetic trees, profile hidden Markov models [HMMs]) are described. The exploitation of tools for searching sequences ...
Absolute contact order (ACO), chain length and packing fraction of insert-discontinuous domain pairs from the Pfam-A database.V. V. Hemanth Giri RaoShachi Gosavi
We also describe how mappings provided through the PPDMs resource are made accessible through the main schema of the ChEMBL database.The PPDMs resource and curation interface is available at https://www.ebi.ac.uk/chembl/research/ppdms/pfam_maps. The source-code for PPDMs is available under...
The 347 text files show the results from scanning each of the fasta-files against the Pfam-A databaseLars SnipenDavid W Ussery
Database : the journal of biological databases and curationA. Ndhlovu, P. M. Durand, and S. Hazelhurst. Evodb: a database of evolutionary rate profiles, associated protein domains and phylogenetic trees for pfam-a. Database, 2015:bav065, 2015....
Furthermore, discovering and accessing such data is fundamental to biologists. There are, however, databases that perform these tasks. Pfam, a protein families database, is one such database. In this chapter, the use of the web interface to Pfam and the resources provided (annotation, sequence...
Pfam is possibly the most well known protein family database, built in many years of work by domain experts with extensive use of manual curation. This approach is generally very accurate, but it is quite time consuming and it may suffer from a bias generated from the hand-curation itself,...