Topics

1

DNA/RNA-protein interactions (SNAP) / H-bonding between RNA bases and protein amino acids

« on: September 02, 2020, 07:38:28 am »

Hi,
May I know if we can calculate the possible H-bonding pairing between the RNA nucleobases and amino acids in RNA-Protein complexes using the current version of SNAP?
Thanks
Mohit

2

RNA structures (DSSR) / SASA of nucleobases

« on: February 06, 2020, 01:35:47 am »

Hello,
May I know if we have the option in DSSR from which we can calculate the solvent accessible surface area of individual nucleobases of RNA structures?
Thanks
Mohit

3

RNA structures (DSSR) / atom-base capping

« on: December 11, 2016, 09:43:12 am »

Hi,
In the atom-base capping interactions, is it possible to also search for oxygen(water) to base contacts. For instance, in PDB id: 3d0u, HOH 213 makes a capping contact with G77, which we can not detect in the current version of dssr or may be I am missing with some option. Kindly suggest.
Thanks,
Mohit