𝗚𝗶𝘁𝗛𝘂𝗯 𝗹𝗶𝗻𝗸: github.com/connyyu/pymo...
𝗠𝗼𝗿𝗲 𝗮𝗯𝗼𝘂𝘁 𝗦𝗜𝗙𝗧𝗦: www.ebi.ac.uk/pdbe/docs/si...
#ProteinStructure #StructuralBiology #PyMOL #Bioinformatics #ComputationalBiology
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#PyMOL
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Posts tagged #PyMOL
GFP molecule in blender
GFP molecule visualized
GFP visualized
Here is my first attempt with biological molecules. Here is my first try at it. Also, tried to make it work using @anthropic.com's Claude MCP but it did quite bad- hope it improves in the future.
@bradyajohnston.bsky.social thanks for the amazing tutorials.
#SciArt #Blender #PyMol #Proteins #Bio
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An enzyme with the movement of a substrate through the tunnel as obtained with CaverWeb
An automatic conversion of coordinates into a beautiful setting for use in papers and presentations. With my pymolrc settings.
The tunnel part is shown only with the substrate movement. An enzyme with the movement of a substrate through the tunnel as obtained with CaverWeb
My #Pymol settings
Both for research (pymolrc-ms.pml) as for teaching (pymolrc-dib.pml).
Teaching part in combination with #CaverWeb and #NCIPlot.
www.marcelswart.eu/blog/251201-...
#CompChem #ChemSky
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Analysis of Fbox substrate adapter proteins using ProteoSync, a program for projection of evolutionary conservation onto protein atomic coordinates. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.09.012
🔗 Analysis of Fbox substrate adapter proteins using ProteoSync, a program for projection of evolutionary conservation onto protein atomic coordinates. Computational and Structural Biotechnology Journal, DOI: doi.org/10.1016/j.cs...
📚 CSBJ: www.csbj.org
#ProteinScience #StructuralBiology #PyMOL
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We’re excited to share our new #PyMOL plugin for protein topology analysis, now available!
doi.org/10.1101/2025...
Link to the report and the GitHub repository:
We’d appreciate your feedback — please try it out in PyMOL and report any bugs or suggestions!
#ChemSky #IDP #Topology #Bioinformatics
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images of pymol, a program on the 3d molecular visualization system, as part of the call to action on industrial filmmaking and corporate literature within your budget
#PyMOL is primarily used for rendering and #animating #3Dmolecularstructures, particularly in scientific research like structural #biology and #pharmaceutical works. Generate #B2Bleads with #IndustrialFilms, #CorporateBranding & #SocialMediaMarketing within budget, Call/ WhatsApp +91-983001170.
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PyMOL設定小ネタ #pymol – Qiita
PyMOL設定小ネタ pymolrcの設定 .pymolrcファイルは、PyMOLの起動時に読み込まれる設定ファイルです。LinuxやmacOSの場合は通常ホームディレクトリ（/Users/${USER}または/home/${USER}）の下に隠しファイルとして存在しています。この設定ファイル自体はPyMOLを開いた後に -> を選択することで開くファイルと同じなので、そちらに記述してもOKです。私はWindowsを使っていないのでpymolrcファイルの正確な位置はわからないのですが、Windowsの方はこちらから編集してください。…
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#Jalview goes the extra mile! Remember the integration with @chimerax.ucsf.edu or #PyMOL? Well, you can use these viewers to inspect #AlphaFold confidence scores #pLDDT and #PAE in multiple #sequence alignment and #structure!
Multiple structure prediction confidence analysis made easy with Jalview!
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PyMol, a tool used in structural biology since the late 1990s, is accessible via CoCalc. We're installing PyMol, fetching PDB files, and visualizing proteins using CoCalc's compute servers and X11 desktop.
Tutorial: youtu.be/JlERUy_ttnk
#PyMol #StructuralBiology #CoCalc #SageMath #python
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#OpenSource multicolor #3Dprinted #molecular #orbital models for a 1st semester organic #chemistry course:
- #classroom-acessible MO theory
- transition state understanding
- #PyMOL- / #Blender- exported .stl files
doi.org/10.1021/acs....
#DIYchem #lab #tools #education #CompChem #STEM #MINT
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Biotite 1.2 connects to the bioinformatics ecosystem with seamless interfaces to @rdkit.bsky.social, #PyMOL and @openmm.org. Below you see a simple MD simulation of lysozyme combining the interfaces to OpenMM and PyMOL. The full changelog is available at github.com/biotite-dev/... #Bioinformatics
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is there a (relatively simple) way to add a PTM to a protein structure in #pymol if the PTM is not supported by the PyTMs plugin?
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I've created a new plugin for #PyMOL (called PyMOLfold) that allows you to fold protein sequences right in the GUI. Simply select your model of choice (e.g., #ESM3, Boltz-1) and paste in your amino acid sequence.
github.com/colbyford/Py...
#ai #proteinfolding #alphafold
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🚀 P2Rank 2.5 now offers #ChimeraX visualizations of ligand-binding site predictions (alongside #PyMOL ones)! Huge thanks to @javierutges.bsky.social and ChimeraX team for inspiration and help.
Release Details: github.com/rdk/p2rank/r...
💡 Feedback welcome!
#Bioinformatics #DrugDiscovery
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The NS2B/NS3 two-component protease from West Nile virus. The NS3 protein is visualised as an electrostatic surface with red regions being acidic, and blue regions being basic. White regions are neutral or hydrophobic in nature. A short segment of the NS2B "cofactor" protein is shown as coloured sticks. The isoleucine 60 residue (magenta), and tryptophan 62 (yellow) residues are critical for NS2B binding to NS3.
Today we celebrate the life of Warren DeLano. Warren is best known for his development of PyMOL, the tool we use almost every day to depict 3D molecular structure of small molecules and proteins.
Please post your favourite PyMOL illustration. Tag with #PyMOL
#WarrenDeLano #PyMOL #Chemsky 🧪
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