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Re: [modeller_usage] Can I calculate the "Objective Function" based on a PDB without doing the comparative modelling?
- To: ZHANG Cheng <272699575 AT qq.com>, modeller_usage <modeller_usage@listsrv.ucsf.edu>
- Subject: Re: [modeller_usage] Can I calculate the "Objective Function" based on a PDB without doing the comparative modelling?
- From: Modeller Caretaker <modeller-care@ucsf.edu>
- Date: Sun, 14 Jun 2020 01:20:52 -0700
On 6/13/20 7:08 PM, ZHANG Cheng via modeller_usage wrote:
Now I have a structure generated by RosettaCM, and I want to use the
MODELLER's "Objective Function" to evaluate its reliability. Would it be
possible?
The objective function scores how well the model fits the set of
Modeller restraints. It wouldn't tell you anything useful for a model
built using another technique. It sounds like what you're looking for is
a model evaluation method, such as DOPE:
https://salilab.org/modeller/9.24/manual/node259.html
or SOAP:
https://salilab.org/modeller/9.24/manual/node283.html
There's also a web server at https://salilab.org/evaluation/
Ben Webb, Modeller Caretaker
--
modeller-care@ucsf.edu https://salilab.org/modeller/
Modeller mail list: https://salilab.org/mailman/listinfo/modeller_usage