47 AM
Subject: Re: [ccp4bb] Judging a homology model
On Tue, Jan 5, 2010 at 9:24 AM, Raja Dey wrote:
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>Assuming all the above data are right, which of the
>following way would give the best model for C?
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>Bui
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
Hi Raja,
1) how big is your protein ?
2) multiple domains ? What's the ID/sim between domains ?
3) Check Xtalpred in case you've overlooked a closer homolog
http://ffas.burnham.org/XtalPred-cgi/xtal.pl
I would not try to predict an intermediate model and then use that to
predict the final mode
On Tue, Jan 5, 2010 at 9:24 AM, Raja Dey wrote:
> Assuming all the above data are right, which of the following way would
> give the best model for C?
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> 1. Building homology model of C with A as template.
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> 2.Building homology model of B with A as template and then use B as
> template t
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
