Computational protocol: A Splicing Mutation in the Novel Mitochondrial Protein DNAJC11 Causes Motor Neuron Pathology Associated with Cristae Disorganization, and Lymphoid Abnormalities in Mice

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Protocol publication

[…] Primary structure of muDNAJC11 was determined using the search tool against the Pfam database (http://pfam.sanger.ac.uk/). Secondary structure prediction and alignment was performed using JPred . Sequence homology searches were performed using BLASTP on both the non-redundand GenBank database and the SwissProt databases. Defining structural homology was performed using BLASTP on the sequences of the ProteinDataBank (PDB) database , , and the SwissModeller server . Multiple sequence alignment for vertebrate DNAJC11 homologues was performed with ClustalX software. The coiled coil region was determined using the MARCOIL coiled-coil prediction software . […]

Pipeline specifications

Software tools JPred, BLASTP, Clustal W, MARCOIL
Databases Pfam
Application Protein structure analysis
Organisms Mus musculus, Homo sapiens
Diseases Lymphoma, Neuromuscular Diseases
Chemicals Ethylnitrosourea