As an alternative, http://conseq.tau.ac.il does what you want. You can
upload your MSA or it will generate one completely automatically. It
colors the query sequence (conseq), or a 3D protein model
(http://consurf.tau.ac.il). State of the art, robust, peer-reviewed
algorithms, fully documented. Residues with large confidence intervals
are colored yellow for caution.
Eric Martz, Professor Emeritus, Dept Microbiology (he/him/his)
Univ. Massachusetts, Amherst -- Martz.MolviZ.Org <http://martz.molviz.org/>
Guided Exploration of Macromolecules with Powerpoint-Ready Animations:
FirstGlance.Jmol.Org <http://firstglance.jmol.org/>
Protein 3D Structure Wiki: Proteopedia.Org
<http://proteopedia.org/w/User:Eric_Martz>
Education: Biochem in 3D at MolviZ.Org <http://molviz.org/>
Find Functional Patches in Proteins: ConSurf.tau.ac.il
<http://consurf.tau.ac.il/>
Atlas of Macromolecules: Atlas.MolviZ.Org <http://atlas.molviz.org/>
See multiple protein sequence alignments clearly: MSAReveal.Org
<http://msareveal.org/>
Pockets And Cavities Using Pseudoatoms in Proteins: PACUPP
<http://molviz.org/pacupp>
Interactive Molecules in Architectural Spaces: MolecularPlayground.Org
<http://molecularplayground.org/>
Syllabi: Workshops.MolviZ.Org <http://workshops.molviz.org/>
On 5/17/21 10:30 AM, Luca Pellegrini wrote:
Hello,
'Colour by conservation’ with Clustal colouring has stopped working. Can anyone
please advise? I’m using Jalview v2.11.1.4 and macOS Catalina.
Best wishes,
Luca
Luca Pellegrini, PhD
Department of Biochemistry
University of Cambridge
Cambridge CB2 1GA
UK
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