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Uniprot maps all nuclear pore associated proteins to
RNA transport/ Transport /Tranlocation/Protein transport
but because the description
includes
proteins like cut11 which is a is a nuclear membran…
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Hey Brady,
I'm trying to visualize an analysis where two protein structures are aligned side-by-side. At the moment, I can't seem to recover the true alignments that I see in VMD (used as a test c…
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**I am trying to do normal mode analysis using prody. I install prody using pip install -U ProDy.
I type prody -h**
usage: prody [-h] [-c] [-v]
{anm,gnm,pca,eda,align,blast,biomol,catd…
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I have been trying to use ctgui to make tomograms for Dragongfly. The basic workflow works great (haven't gone to the dragonfly side yet) but the membrane-bound protein tutorial is very confusing.
…
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Hi, I'm probably not understanding something correctly but I'm setting deprotonate to False and still get deprotonation happening:
```
self.graphein_config = ProteinGraphConfig(granularity='…
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I’m attempting to get the DOCKQ score of a model of CAPRI target #50, from the score_set dataset. The model is named Target50_0000.pdb and the correct crystal structure is named Target50_3r2x.pdb. Bot…
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Hi,
I have tried to reproduce the experiments in the paper using REINVENT.
Based on the jupyter notebook and code (the provided reinvent-benchmarking GitHub repo).
Since minor errors occurred, I …
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Dear Dr Zhu,
I did a few tests. One of my targets has a C2+ ion in the binding pocket that has been shown, in co-crystals, to be important for binding. The receptor models I get from a docking wit…
CLG68 updated
3 months ago
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**Date**: April 9th 2024
**Time**: 2pm UK time [other timezones](https://www.timeanddate.com/worldclock/meetingdetails.html?year=2024&month=4&day=9&hour=13&min=0&sec=0&p1=43&p2=136&p3=37&p4=771&p5=23…
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### Bug summary
I get an error when calculating energy of system with glycans. I prepared the system with CHARMM-GUI, but due to nature of gromacs the pdb file with separate chains for the dimer and …