Description Usage Arguments Details Value Examples
This function allows to obtain positions in aligned sequences for analyzed structure (e.g. functionally related amino acids dispersed in sequence) based on sequence corresponding to the crystal structure.
1 |
structure |
The output of create_structure_seq function |
It facilitates the management and oparation on the entropy values calculated for given MSA.
proteinIndices |
A sorted vector of amino acids of analyzed sequence in MSA |
strucureIndices |
A list of sorted vectors of amino acids indices in aligned sequence for each structure |
1 2 3 4 5 6 7 8 9 | data("structure")
#creating library uniprot - PDB
lib=list(c("Q84HB8","4I19","4QA9"),
c("P34913","4JNC"),
c("P34914","1EK2","1CR6","1EK1","1CQZ"))
pdb_name = "1CQZ" #A string with path to PDB file
uniprot=find_seqid(pdb_name,lib)
tunnel=create_structure_seq(structure,uniprot,alignment)
structure_index=get_structures_idx(tunnel)
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