Repository for .PDB files analysis.
Consurf visualization:
- replaces b-factor values with consurf values on a ".pdb" file.
Residues distance:
- Calculate the distance between two amino acids by their alpha carbons, upon a ".pdb" file.
RMSD:
- Calculate overall RMSD between a template and all the remaining ".pdb" files in the folder.
Clustal to ali:
- Convert a Clustal Omega alignment to a ".ali" file (Modeller friendly input).
Proq:
- Input a ".pdb" file to retrieve LGScore and MaxSub evaluation. Secondary structure submission is possible.
Haddock:
- Input a ".pdb" dimer file to perform interface refinement. Confirm chromedriver version prior to usage.
Correct amino acid:
- Input a ".pdb" file to correct an amino acid name on the whole file. Can also be used on all the files in the folder.
Center coordinates:
- Input a ".pdb" file to attain an output with the coordinates geometrically centered.
Interface class:
- input a ".pdb" file to attain a interfacial classification of a dimer chain.
Renumber pdb:
- input a ".pdb" file to attain the renumbered (from 1) ".pdb file".
Query Uniprot and PDB
- input a csv table and find UniProt and PDBids.
- retrieve protein structure and sequence.
Rename chains:
- input a ".pdb" file and the chain names to rename chains or input chains in absence.
3Dcons:
- input a PDB code and fetch the calculated PSSM results.