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Problem With Ramachandran Plot

A)Ramachandran Plot

Residues in most favoured regions 83.6%

Residues in additional allowed regions 11.6%

Residues in generously allowed regions 3.4%

Residues in disallowed regions 1.3%

B) G-factors Dihedrals: -0.63 Covalent: -0.07 Overall: -0.38

# I have already built 3D structure of my target protein. And go through some validation like the Ramachandran plot as shown above.

My problem is

1) Can I accept the 3D model that has been built. Because?, according to the literature that I has studied. They said a good quality model would be expected to have over 90% in the most favoured regions.

2) For G-factors, according to literature The overall G-factor quality was 0.2, indicating a good quality model (G-factor values between 0 to 0.5 are acceptable) but i get -0.38 .

Anybody who has experience for that above matter? I need help.

plot

If you want to validate a homology model, there are much better tools that Ramachandran plot. Try ProQ, Modfold and Prosa.

Dear Pappu. Sorry for the late reply, Thaks a lot. Tools that you have provided help me a lot. Thanks once again Pappu

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