8000 Secondary structure with MC-annotate · Issue #41 · ViennaRNA/forgi · GitHub
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Secondary structure with MC-annotate #41
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Secondary structure with MC-annotate#41
@mandar5335

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@mandar5335
mandar5335
opened on Feb 22, 2022

Hi,

I used rnaConvert.py to get secondary structure with

rnaConvert.py -T fasta 5nwq_A.pdb --pdb-annotation-tool MC-Annotate

The predicted SS is without pseudoknot base pairing, is it expected behavior for pseudoknot structures?

>5nwq_A
CCGGACGAGGUGCGCCGUACCCGGUCAGGACAAGACGGCGC
...........(((((((................)))))))

Best,
Mandar Kulkarni

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