Metadisorder

[…] cd30 was analyzed by web-hosted bioinformatics tools for similarities to other proteins: blast (); t-coffee (); secondary structure prediction (jpred; ); prediction of disordered regions (genesilico metadisorder; ); and fold recognition (i-tasser; ). the structure prediction method i-tasser () predicts that cd30v could fold into a compact α/β domain, but the confidence of the prediction […]

[…] catalyze ubiquitin transfer as it lacks the cysteine that forms a transient thioester bond with the c-terminus of ubiquitin (ub)., prediction of potentially disordered regions using the genesilico metadisorder server (http://iimcb.genesilico.pl/metadisorder/) revealed that at the c-terminus of peo there is a stretch of ~ 70 aa (from residue 177 to 244, according swissprot numbering) […]

[…] aktip exhibits an hpl tripeptide (hph in peo) instead of the hpn peptide, which is a canonical signature of the e2 superfamily. prediction of potentially disordered regions using the genesilico metadisorder server revealed that at the n and c termini of aktip there are stretches of ~ 70 aa that have a tendency to be intrinsically disordered. aktip modeling was performed using the composite […]

[…] prediction sites to identify likely structural features of the endogenous dux4-fl protein. sites that we consulted include raptorx at http://raptorx.uchicago.edu/structureprediction/ () (a); metadisorder at http://genesilico.pl/metadisorder/ (); phyre2 at http://www.sbg.bio.ic.ac.uk/~phyre2 (); robetta at http://robetta.bakerlab.org (); and the eukaryotic linear motif resource […]

[…] subjected a single cfbp sequence to disorder prediction by multiple programs, and the prdos results agreed with essentially all of them, including several meta-predictors (data not shown), such as metadisorder, which compares nearly two dozen different methods [], and pondr-fit, which combines five []. for routine analysis, the prdos results were downloaded as csv (comma-separated values) […]

[…] presence of glycerol, zinc or 2,2,2-trifluoroethanol (tfe)., the amino acid sequences of hvasr1 and ttasr1 were analyzed using the metaserver for predicting protein disorder (medor) and genesilico metadisorder metaservers (fig. ). from hydrophobic cluster analysis (hca), both proteins appear depleted in hydrophobic clusters, indicative of protein disorder (fig. ). additionally, the two […]

[…] because it is an intrinsically disordered protein region (idpr) and recalcitrant to crystallization (). this idea is supported by the local disorder prediction of avp1 sequence (figure ; genesilico metadisorder tool; ) that predicts the amino-acid residues 40–63 of the m1-m2 loop are disordered. interestingly, we found other idpr or potentially flexible loops in avp1 that include […]

[…] conservation scores for each myotilin residue in the multiple sequence alignment (msa) were calculated using the scorecons server. disorder tendency prediction was performed using the genesilico metadisorder server., consurf-db was used for presentation of evolutionary conservation profiles of myotilin ig domains. pre-calculated msa for ig1 consisted of 301 homologues and 152 homologues […]