diff --git a/blog/_posts/2024-05-20-Moorhen-Cryo-EM-Tutorial.md b/blog/_posts/2024-05-20-Moorhen-Cryo-EM-Tutorial.md index 53d638d..66b9cb4 100644 --- a/blog/_posts/2024-05-20-Moorhen-Cryo-EM-Tutorial.md +++ b/blog/_posts/2024-05-20-Moorhen-Cryo-EM-Tutorial.md @@ -20,8 +20,8 @@ At the moment, you will need to gunzip the map. - (you can also use '[' and ']' to increase and decrease the map radius) - **Map Tools** → **Sharpen/Blur map** - - B-factor to apply should be zero - - Turn on **use resample** and use the resample factor 1.4 → **OK** + - "B-factor to apply" should be `0` + - Turn on **use resample** and use the resample factor `1.4` → **OK** - **Maps** → Click on the "Gear" icon on the (newly-created) Masked map → Draw settings → Activate "**Lit lines**" You will see that this new map is more easy to interpret. @@ -108,12 +108,19 @@ Moorhen generates extra restraints (shown in grey lines) - **Maps** → "Gear" icon of the masked map → **set map weight** - `1830` (it should be the default) → **Set** -To refine this domain/chain: +To refine this domain/chain, we need to tell Moorhen which map to use +for the refinement + + - **Maps** → Click on the "○ Active" button of the masked map + +The background of the button will turn black when it's active. + +Now define which atoms we want to refine (in this case, all of the nanobody) - **Edit** → **Create a selection** - - Molecule is `6gdg fragment` - - Atom Selection is `//` (i.e. "all atoms") - - **OK** + - Molecule is `6gdg fragment` + - Atom Selection is `//` (i.e. "all atoms") + - **OK** You will see that the nanobody is now highlighted with green bonds and atoms. A dialog will appear at the middle top