[chimerax-users] [EXTERNAL] Re: Colour residues by local resolution estimation map

[Reza Khayat]

Isn't this what Q-scores does?


https://www.nature.com/articles/s41592-020-0731-1?


Best wishes,
Reza


Reza Khayat, PhD
Associate Professor
City College of New York
Department of Chemistry and Biochemistry
New York, NY 10031
________________________________
From: ChimeraX-users <chimerax-users-bounces at cgl.ucsf.edu> on behalf of Oliver Clarke <olibclarke at gmail.com>
Sent: Wednesday, May 19, 2021 9:58 AM
To: Ioannis Skalidis
Cc: chimerax-users at cgl.ucsf.edu
Subject: [EXTERNAL] Re: [chimerax-users] Colour residues by local resolution estimation map

Hi Yiannis,

I am not sure whether this is possible in ChimeraX yet, but you can do this in Chimera using a combination of `Values at Atom Positions` and `Render by Attribute`.

https://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/density/density.html<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.cgl.ucsf.edu_chimera_docs_ContributedSoftware_density_density.html&d=DwMFaQ&c=4NmamNZG3KTnUCoC6InoLJ6KV1tbVKrkZXHRwtIMGmo&r=1DzJFW0v6TgEhkW1gy_-ke-RbtvS1fzEbD5_hcb9Up0&m=qUJvH5WM1Uut64mw5EYEiH3-YEyReOn0xpoA7yvhA-U&s=uZil8qWzh3fWtec_Fqpi76PvfP_xEH84sjxKOmU2NcM&e=>

https://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/render/render.html<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.cgl.ucsf.edu_chimera_docs_ContributedSoftware_render_render.html&d=DwMFaQ&c=4NmamNZG3KTnUCoC6InoLJ6KV1tbVKrkZXHRwtIMGmo&r=1DzJFW0v6TgEhkW1gy_-ke-RbtvS1fzEbD5_hcb9Up0&m=qUJvH5WM1Uut64mw5EYEiH3-YEyReOn0xpoA7yvhA-U&s=EcDDHlqwuPUuSmFKeR9RKJqK4iCHIwkx5__4ARdhxzc&e=>

Cheers
Oli

On May 19, 2021, at 9:22 AM, Ioannis Skalidis <johnskalidis at gmail.com<mailto:johnskalidis at gmail.com>> wrote:

Dear all,

I am trying to color a protein model based on the local resolution of the corresponding map. I can color the overall surface of the model, but not the residues themselves. Is there a way to do this, e.g, color the model backbone somehow?

Thanks a lot for your help!

Cheers,
Yiannis

--



Skalidis Ioannis, MSc
Biochemistry & Cryo-EM Scientist
PhD Candidate
Kastritis Laboratory for Biomolecular Research
Cryo-Electron Microscopy & Computational Structural Biology

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