Question: 3d modeling of protein
1
gravatar for Ehsan
3.1 years ago by
Ehsan10
Bangladesh
Ehsan10 wrote:

i want to predict the 3d (tertiary) structure of a hypothetical protein without using homology modeling. suggest me any softwere/online tool that i can use to determine the 3d structure of an unknown,hypotheticl protein & that doesn't depend on homology modeling. thanks in advance.

sequence • 1.0k views
ADD COMMENTlink modified 3.1 years ago by Ibrahim Tanyalcin940 • written 3.1 years ago by Ehsan10
2
gravatar for Ibrahim Tanyalcin
3.1 years ago by
Belgium
Ibrahim Tanyalcin940 wrote:

Dear,

Your key term here is ab initio modeling. There is one package available called rosetta (https://www.rosettacommons.org/). Some other programs wills first use homology modeling for parts of the protein that already exists in their database, and then use ab initio to model those parts that do not match. You can check I-TASSER (http://zhanglab.ccmb.med.umich.edu/I-TASSER/). These are just a few examples,

Regards,

ADD COMMENTlink written 3.1 years ago by Ibrahim Tanyalcin940
2

Also: check ab initio fold recognition and/or threading based tools: https://en.wikipedia.org/wiki/Threading_(protein_sequence)

ADD REPLYlink written 3.1 years ago by Khader Shameer18k
0
gravatar for agata88
3.1 years ago by
agata88790
Poland
agata88790 wrote:

I think PyMol can do that. https://www.pymol.org/

Hope it helps,

Best,

Agata

ADD COMMENTlink written 3.1 years ago by agata88790
1

Pymol can do modeling, not whole protein but peptides.

ADD REPLYlink modified 3.1 years ago • written 3.1 years ago by Khader Shameer18k
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