research.jacquette.com
Computational Chemistry | Jacquette Engineering
http://research.jacquette.com/embedded-pymol
ENGINEERING FOR APPLIED RESEARCH. Jacquette Consulting, Inc. Posted by J Ferrara. On Nov 4, 2011 in Projects. Provided development expertise to a small drug discovery company with a focus on in-silico drug discovery technology. Building on the client’s core fragment/protein interaction simulation technology, we developed a tool for designing small molecule ligands using fragment/protein interaction data. The software uses PyMOL. Technology: Python, C , PyMOL, parallel processing). You may use these.
gregkuebler.blogspot.com
greg kuebler - blog
http://gregkuebler.blogspot.com/2010/04/visuals-for-life-from-rna-world.html
Science art = this. Visuals for "Life from an RNA World: The Ancestor Within". Michael Yarus (aka Mike) came to me about helping him create all the insert visuals for his new book " Life from an RNA World: The Ancestor Within. The book is published by Harvard University Press. And is now available on their website and on Amazon. I was familiar with VMD (Visual Molecular Dynamics) software. In past projects at JILA. I typically use VMD in coordination with Maya where I would use VMD to produce the mod...
pyrosetta.org
Documentation - PyRosetta
http://www.pyrosetta.org/documentation
Reading and Searching PyRosetta. Finding/Testing Objects and Methods. Developing and Testing New Protocols. Building PyRosetta from source. 1 Deploying PyRosetta build environment. 5 Getters and Setters. 7 Rosetta "Size" and "Real". 8 0 Indexing vs 1 Indexing. 10 Common Method Names. 11 "fullatom" vs. "centroid". A Bit of Python. A Bit of C. 1 The PyRosetta Toolkit. Making a PDB Rosetta-friendly. Hydrogen Bonds and Hydrogen Bond Scoring. Finding/Testing Objects and Methods. Help messages, produced using ".
ns300183.ovh.net
SwissSidechain - A database of non-natural sidechains
http://ns300183.ovh.net/FAQ.php
In order to avoid security-related warning messages when switching to secured connection, you may want either to:. Confirm the exception on the next page, or. Import our CA key. In your web browser. Swiss Institute of Bioinformatics. What is an amino acid? What is a sidechain? What are non-natural sidechains? What is the difference between L and D amino acids? How were the rotamer libraries generated in SwissSidechain? What kind of data can I find in the SwissSidechain database? Where can I obtain PyMOL?
iamanovice.wordpress.com
March | 2015 | I am a novice
https://iamanovice.wordpress.com/2015/03
I am a novice. For my own study and yours, too. Useful list for self-learners. March 24, 2015. Learn from around the globe. For non-expert scientists who want to make their own structural presentation, PyMOL. If you start from the beginning, it will be easier if you read the user guide. Command to polish your molecules before exporting the image. An alternative program, which I found out much later on, is Chimera. Which provides hundreds of AI tutorials. Pen Tool or Bezier Tool:. Pen Tool for Bezier curv...
exon.niaid.nih.gov
https://exon.niaid.nih.gov/links.html
National Institute of Allergy and Infectious Diseases. A service of the Bioinformatics and Computational Biosciences Branch. At the Office of Cyber Infrastructure and Computational Biology. General Bioinformatics Links and Resources. A searchable directory of links maintained by the Bioinformatics Graduate Program at the University of British Columbia. The Database for Annotation, Visualization and Integrated Discovery (DAVID). European Bioinformatics Institute (EBI) Toolbox. A collection of open-source ...
nature.com
Exploiting tertiary structure through local folds for crystallographic phasing : Nature Methods : Nature Research
http://www.nature.com/nmeth/journal/v10/n11/abs/nmeth.2644.html
Jump to main content. Specials, focuses and supplements. Smart-seq2 for sensitive full-length transcriptome profiling in single cells. Improved low-resolution crystallographic refinement with Phenix and Rosetta. Exploiting tertiary structure through local folds for crystallographic phasing. Dayté D Rodríguez. Iñaki M de Ilarduya. Rubén M Buey. José M de Pereda. Download as PDF (930 KB). View interactive PDF in ReadCube. Characteristic C α. Centroid (X(C α. And PyMOL ( http:/ www.pymol.org/. Solving fragm...
jamiebaxter.com
Musings of a Midwest Scientist | Biochemistry crammed into a crafty young man. This is what you get.
http://jamiebaxter.com/blog
Musings of a Midwest Scientist. Biochemistry crammed into a crafty young man. This is what you get. Mapping out thin ice on aging ZFS drives. Middot; Write a comment. Middot; Categories: Techie. Middot; Tags: disk failure. Ever since I got my server started, it’s gone through various changes. It started on OpenSolaris. Eventually got stable on FreeNAS. And finally matured into a more permanent FreeBSD. Gives me a range of 30998 43674 hours (3.54 4.99 years). Upwards of 5 years now. Middot; Write a comment.
swisssidechain.ch
SwissSidechain - A database of non-natural sidechains
http://www.swisssidechain.ch/visualization/pymol.php
In order to avoid security-related warning messages when switching to secured connection, you may want either to:. Confirm the exception on the next page, or. Import our CA key. In your web browser. Swiss Institute of Bioinformatics. SwissSidechain - PyMOL Plugin. This plugin enables you to mutate any residue of a PDB structure into one of the non-natural L- or D-sidechains of the SwissSidechain database. If you do not have PyMOL, it can be obtained here. In a directory of your choice. Copy PySwissSidech...
