Hi
i am a bigginer. i want to use my predicted structuer for doing MD using gromacs.
i used an available pdb file existed on the pdb site as a template for prediction. i have 2 folwing questions:
1-should i use the predicted file named as a "model1" for MD or another?
2-at the end of pdb file of "model1" ther is a term "TER" instead of "END" that i have normaly found it in the pdb files on the pdb site. is there any problem with my files? or shuold i chang TER to END then i use it in the gromacs?
thank you.