Marko Babić

4 Questions 10 Answers 0 Followers

Questions related from Marko Babić

How to add PBS ions in CHARMM-GUI for an AMBER ff simulation?

Here is what I'm trying to do: to solvate a peptide in water and ions that would mimic a PBS solution. To do this I tried uploading my peptide into the Solution Builder, adding the following...

14 December 2022 4,310 0 View

Is there a database that contains catalytic efficiency next to the respective enzyme?

I've found dozens of databases with enzymes and catalytic peptides but none of them seem to have a clearly stated catalytic efficiency. Even a site with metadata or any sort of machine readable,...

13 April 2022 8,024 0 View

Does anyone know of a multiseq alignment that aligns main chain atoms?

Im looking for a multi sequence structural alignment tool that can align main chain atoms like main chain oxygen and main chain nitrogens in a PDB file. Or even better, one that specifically...

07 March 2022 7,413 2 View

Software for de novo peptide design?

Im looking for software that can help me build peptides. I need something that can synthesize using a variety of different modified amino acids, not just the 20. So that I can add molecules like...

19 August 2021 2,965 3 View