Pfam: a comprehensive database of protein domain families based on seed alignments See also the following link for information about Pfam: The Pfam protein families database:: R.D. Finn, J. Mistry, J. Tate, P. Coggill, A. Heger, J.E. Pollington, O.L. Gavin, P. Gunesekaran, G. ...
I'm trying to run eggnog-mapper in a computing cluster that I've never used before have eggnog-mapper v2.1.10 stuck forever in the pfam annotation step. I've used v2.1.9 in another cluster with the same settings and had no issue with it. This is the .out file: # emapper-2.1....
For this reason, MAGs need to undergo both gene calling and Pfam annotation before TolRad can be applied. Additionally, MAGs, unlike UniProt proteomes, are often only partial genome assemblies (46). To test the consistency of classifications made by TolRad on de novo Pfam annotations, the ...
unixbioinformaticsuniprotpfamprotein-annotation UpdatedMar 17, 2023 C Snakemake pipeline for searching genomic sequences for those that encode proteins containing domains of choice snakemakeproteinshmmerprotein-sequenceprotein-domainspfamsignalp UpdatedSep 14, 2024 ...
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 ...
Pfam is a database of conserved protein families or domains commonly used for genome annotation and sequence classification. It comprises two parts: (1) Pfam-A families, which are fully annotated and consist of a representative seed alignment, HMMs, and a full alignment comprising all sequences ...
VIEW A STRUCTURE KEYWORD SEARCH JUMP TO You can find data in Pfam in various ways... Analyze your protein sequence for Pfam matches View Pfam annotation and alignments See groups of related entries Look at the domain organisation of a protein sequence ...
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 against the library of Pfam HMMs, searching for domain ...
View Pfam annotation and alignments See groups of related entries Look at the domain organisation of a protein sequence Find the domains on a PDB structure Query Pfam by keywords Go Example Enter any type of accession or ID to jump to the page for a Pfam entry or clan, UniProt sequence, ...
Motivation: In order to enhance genome annotation, the fully automatic fold recognition method GenTHREADER has been improved and benchmarked. The previous ... McGuffin Liam J.,DT Jones - 《Bioinformatics》 被引量: 780发表: 2003年 The ProDom database of protein domain families The ProDom data...