From..To The range of amino acids in the query protein sequence to which the domain model aligns. (Note: If the alignment found by RPS-BLAST omitted more than 20% of the CD's extent at either the n- or c-terminus or both, the partial nature of the hit is indicated in the "Incomp...
Geographical origin affects protein expression Given our previous observations [27] we first asked whether any of the protein expression profiles could be explained, at least in part, by the geographical origin of the colonies? Of the 476 proteins in at least 25% of the blocks, the profiles fo...
From..To The range of amino acids in the query protein sequence to which the domain model aligns. (Note: If the alignment found by RPS-BLAST omitted more than 20% of the CD's extent at either the n- or c- terminus or both, the partial nature of the hit is indicated in the "...
The accession string and title text from the FASTA entry, listed on the master results page, will usually describe just one of these entries. To see the equivalent entries, and to explore their taxonomy, follow the accession number link in the results list to the Protein View. If the hit ...
(recently reclassified asPhocaeicola vulgatus), is a G-protein-coupled receptor agonist28. Surprisingly it had many matches to several bacterial cultures, including in Flavobacteriaceae (Algibacter,Lutibacter,Maribacter,Polaribacter,PostechiellaandWinogradskyella) andBacteroidescultures (Fig.1d). ...
Figs. 2c, d show the glycoPSMs identified at the glycosylation site N234 on the protein PO13781|YEO3_SCHPO, which had been reported by Zielinska et al.31 using a deglycosylation approach (i.e. only the glycosylation site reported but not the specific glycans). GlycanFinder identified three...
You can, for example, do a translated nucleotide against protein profile search. Memory requirements MMseqs2 minimum memory requirements for cluster or linclust is 1 byte per sequence residue, search needs 1 byte per target residue. Sequence databases can be compressed using the --compress flag, ...
Therange of amino acids in the query protein sequenceto which the domain model aligns.(Note: If the alignment found by RPS-BLAST omitted more than 20% of the CD's extent at either the n- or c-terminus or both, the partial nature of the hit is indicated in the "Incomplete" column of...
For a protein database, the required RAM is roughly 80% of the FASTA file size, while for a nucleic acid database it is roughly 50%. Some examples are given in the following table.DatabaseFASTARAMCompression Swiss-Prot 272 MB 245 MB 1 : 0.9 NCBIprot 339 GB 271 GB 1 : 0.8 Plants_...
C The structure of the endonuclease I dimer with the DNA removed to show the DNA-binding channel (shown by the arrow). As a working model we propose that duplex DNA would fit into this 34 Å-long channel, allowing translocation of the protein along the DNA. Note the strongly electro...