Dear Sun --
I want to check the conformation of one important amino acid in the structure by looking the difference density map. Should I just omit that amino acid in the refinement or should I also omit its flanking amino acids? Which one is better?
The real expert will talk better than me, but I'd go for removing 1-2 additional residues around your target. Personal preferences though... Depends on your resolution as well. If at low resolution you remove 3 residues, you might have all of them gone for good, so the target would be enough...
HTH Kind regards. Leo ------------------------------------------------------------ Chavas Leonard, Ph.D. Research Associate ------------------------------------------------------------ Faculty of Life Sciences The University of Manchester The Michael Smith Building Oxford Road Manchester Lancashire M13 9PT ------------------------------------------------------------ Tel: +44(0)161-275-1586 e-mail: [EMAIL PROTECTED]
