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I have a problem that the wwPDB deposition server and also the wwPDB validation server misidentifies my polymer chains as polyribonucleotide instead of polypeptide(L) when I upload the refined.mmcif f…
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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 …
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v2.3.1 runs ok with monomer, and same complex ran fine in v2.2.0. Thanks in advance for any help.
I0307 13:49:31.936174 140117654611776 run_docker.py:258] Traceback (most recent call last):
I0307 …
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Hello -
I was testing my model-angelo v.1.0.1 installation using this RNA only cryo-EM map:
https://www.rcsb.org/structure/6ues
https://www.emdataresource.org/EMD-20755
But, with this as i…
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Hi,
I have been trying to run the latest version as I usually do :
`python ./fr3d-python/fr3d/classifiers/NA_pairwise_interactions.py --input ../Data/CIF/1S72.cif --output . --category basepair,…
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We list the proteins present in a structure, but not the ncRNAs. For example, this structure has U2 snRNA. I presume these have RNACentral IDs , so we might be able to get these IDs too from a mappi…
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Dear Carlos,
Thank you for developing this tool. I'm currently trying to infer some of the RNAs I'm interested in, and I followed the instruction in the `data_processor` folder to prepare the input g…
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i was running ernwin for long non-coding RNA, but it got stuck at the same step every time. I am attaching here the complete transcript of command.
(py2) [gunjan@uslims ernwin]$ ernwin.py JEV_3TR/JE…
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**Describe the bug**
When I run plip in the command line with a specific pdb file it crashes due to a segmentation error.
I cannot really figure out where the error comes from.
**To Reproduce**
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>> initialize_drawing ('3nkb.pdb');
ans =
'3NKB_1 A:1-9 B:1-64'
Drawing helices... done
Moving graphic elements to back... could take a while.
Elapsed time is 0.000430 seconds.
Unre…