[PyMOL] definitions of secondary structure

2005-06-05 Thread Sergio E. Wong
Dear sirs; I'm wondering what are the definitions employed to determine secondary structure in pymol. Specifically, what is the variation allowed from ideal beta strand or alpha helical phi/psi angles?? Thanks -Sergio

[PyMOL] polar contact definition

2005-05-23 Thread Sergio E. Wong
Dear Pymol users: I'm using pymol to find "polar contacts". I'm wondering what is the definition of a "polar contact". Some of the distances are longer than expected for a hydrogen bond. So, I'm left wondering what is the distance cut off employed. Thanks -Sergio