[ccp4bb] How to fix ARG planarity outliers?

2023-08-17 Thread Vladyslav Yadrykhinsky
Hello, I am refining a structure and I have ARG planarity outliers in the sidechain. Could someone please tell me how should I set the planarity restraint in REFMAC5 (version 5.8.0403) to correct them? Should I use: plane [value1] [value2] in the advanced settings? If so, what values 1 and 2 sh

Re: [ccp4bb] How to fix ARG planarity outliers?

2023-08-17 Thread Vladyslav Yadrykhinsky
3 at 15:02, Vladyslav Yadrykhinsky wrote: > > Hello, > > I am refining a structure and I have ARG planarity outliers in the sidechain. > Could someone please tell me how should I set the planarity restraint in > REFMAC5 (version 5.8.0403) to correct them? > > Should I use: plane

[ccp4bb] Questions about PanDDA modelling and refining

2024-07-29 Thread Vladyslav Yadrykhinsky
Hello, I am learning how to use PanDDA and would appreciate some clarifications on the modeling and refining steps. I realize that maybe some questions will be too obvious, but I would appreciate the confirmation of my guesses so I might learn to do it the correct way. I managed to get to step