SOSUI

[…] NCBI-blastp (http://blast.ncbi.nlm.nih.gov/Blast.cgi), Pfam (http://pfam.sanger.ac.uk/), and SOSUI (http://harrier.nagahama-i-bio.ac.jp/sosui/) were used to search for motifs in the NSD-1 sequence. […]

[…] lyzed for protein domain composition using the SMART database () and Pfam, Prints, and TIGRFAMs under InterProScan (). TM domains were predicted using Phobius (), TMHMM (), HMMTOP (), GPCRHMM (), and SOSUI (). Proteins containing domains other than PIPK at the C terminus and those without TM domains were discarded. Newly identified GPCR-PIPKs were then used in queries for iterative searches using […]

[…] h which it shares an average nucleotide identity (ANI) of 73% (GenBank accession number KU530220).Abt2graduatex2 gp29 has been identified as a putative class II holin () by structural homology () and SOSUI analysis showing two transmembrane regions (). Abt2graduatex2 gp29 is present in all current members of the BG cluster, where it forms a putative operon with gp28, a lysin, but it is absent in a […]

[…] The amino acid sequences of the feline CLCA3 were analyzed in silico using the SignalP 4.1 [], Kyte–Doolittle [], SOSUI [], HMMtop [], DAS [], PSORT II [] and NetNGlyc (http://www.cbs.dtu.dk/services/NetNGlyc) software. Putative proteolytic cleavage sites were identified by interspecies comparison of the amino ac […]

[…] et al. ). ckGL was unstable in the absence of Triton X-100, suggesting that it might be membrane-bound or associated. As discussed above, the ChloroP program predicted that ckGL has a cTP, while the SOSUI system and TMHMM server analyses of ckGL suggested that the enzyme is a soluble protein. Therefore, these results imply that ckGL might be located in the chloroplast stroma. Further investigatio […]

[…] murium showed that IgaA is an inner membrane protein produced at relatively constant levels in all growing conditions (). Programs that predict transmembrane helix regions and protein topology (THMM, SOSUI, TMPred, PredictProtein) indicate that the 710 amino acid protein IgaA has five transmembrane segments, resulting in two cytosolic domains (residues 22–202, 247–336), one small periplasmic loop […]