Question: Predict protein secondary structure from alignment
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suzanne96yao • 0 wrote:
Dear all,
I want to predict the secondary structure using MSA as input.
I looked up Jpred4, which can use both sequence fasta or alignment in fasta format as input. However, it only provides a RESTful API for users to submit the jobs to their server, and I would like to work locally instead.
PSIPRED is another option, but it seems to not accept B in the amino acid code...
Do you have any other recommendation?
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modified 12 weeks ago
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AsoInfo • 300
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12 weeks ago by
suzanne96yao • 0
Does B mean either aspartic acid or asparagine? If so, you could replace B with D or N and run through PSIPRED.