Assuming all the above data are right, which of the following way would give the best model for C?
1. Building homology model of C with A as template.
2. Building homology model of B with A as template and then use B as template to build C.
Suppose I used MODELLER for this work where an energy minimization step is involved after threading the query sequence on the template.
I need to know which model for C will be better and why?
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Dear Friends,
I have a question about judging a homology model. I have three homologous proteins A, B and C of which only A has 3D crystal structure available. Their similarities/identities are given below.
Pair-wise alignment similarity/identity (%)
A and B 63/49
A and C 54/39
B and C 60/46
Assuming all the above data are right, which of the following way would give the best model for C?
1. Building homology model of C with A as template.
2. Building homology model of B with A as template and then use B as template to build C.
Suppose I used MODELLER for this work where an energy minimization step is involved after threading the query sequence on the template.
I need to know which model for C will be better and why?
Thanks for your answer…
Happy New Year to you all,
Raja