I would like to ask for some advice for building a personal computer for general home use and bioinformatics (mainly molecular dynamics, like CUDA calculations in GROMACS, AMBER, ect) Budget is somewhere around 1500$.

1) Is there any preference between Intel or AMD for bioinformatics? For example, core i5-9600kf vs ryzen 5 3600. Like probable optimization issues of software for the processor architecture? I have heard that AMD is better for linux, but i am not sure about it

2) I already have Nvidea RTX 2060 super and GTX 970 from my old PCs. Can i use them both for CUDA calculations?

3) Is there anything special that needs to  be considered in motherboard choice for CUDA calculations/bioinformatics?