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uw-ipd / RoseTTAFold2NA

RoseTTAFold2 protein/nucleic acid complex prediction
MIT License
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Strange output when running example #23

Open hnisonoff opened 1 year ago

hnisonoff commented 1 year ago

Thank you for the open-source code!

I was running the example provided in the README with: ../run_RF2NA.sh t000_ protein.fa R:RNA.fa

The output PDB looks mostly reasonable, except the last 11 bases of the RNA seem to be missing and there are 8 UNK protein residues added at the end. I have attached a copy of the output folder.

I am not familiar with the RNA MSA processing but it does appear that the RNA.afa file has a a single sequence that is also missing the same 11 bases as the final output. Would you be able to confirm whether these intermediate output files look reasonable? I don't see anything out of the ordinary in the log files.

t000_.tar.gz

Phage-structure-geek commented 1 year ago

Hi,

Exactly the same here.

Also of note, in both cases (model_00.pdb files) the B-factor column shows 1.00 for every atom. No pLDDTs...

Something is not right.

Petr