Computational protocol: Identification of Domains and Amino Acids Essential to the Collagen Galactosyltransferase Activity of GLT25D1

Similar protocols

Protocol publication

[…] Protein sequences corresponding to human GLT25D1 (Swiss-Prot:Q8NBJ5), human GLT25D2 (Swiss-Prot:Q81IYK4) and human CEECAM1 (Swiss-Prot:Q5T4B2) were used as input for the PROMALS3D multiple sequence and structure alignment tool (http://prodata.swmed.edu/ promals3d/promals3d.php) . An identity threshold of 0.6 was chosen and other settings were set as default. Sequences were aligned according to predicted α-helices and β-strands. Protein homology detection of the three proteins was done using the HHpred program based on the pdb70 database (http://toolkit.tuebingen.mpg.de/hhpred) . Multiple sequence alignment was done using ClustalW2 program (http://www.ebi.ac.uk/Tools /msa/clustalw2/) . […]

Pipeline specifications

Software tools PROMALS3D, HHPred, Clustal W
Databases UniProt
Applications Protein structure analysis, Amino acid sequence alignment
Organisms Homo sapiens