User:Wayne Decatur: Difference between revisions
From Proteopedia
Jump to navigationJump to search
No edit summary Tags: Mobile edit Mobile web edit |
go to more common spelling Tags: Mobile edit Mobile web edit |
||
| (2 intermediate revisions by the same user not shown) | |||
| Line 85: | Line 85: | ||
*[[Isoelectric point]] | *[[Isoelectric point]] | ||
*[[Standard Residues]] and [[Non-Standard Residues]] | *[[Standard Residues]] and [[Non-Standard Residues]] | ||
*[[Reentrant loops]] | |||
*[[Web servers for convenient generation of publication-quality figures for molecular views]] | *[[Web servers for convenient generation of publication-quality figures for molecular views]] | ||
Latest revision as of 21:41, 20 February 2026
Wayne Decatur
Research Associate in the Department of Biochemistry and Molecular Biology at the SUNY Upstate Medical University.
Member of the Proteopedia Editorial Board.
Project Jupyter Distinguished Contributor
Member of the Bioinformatics Virtual Coordination Network Instructor Consortium
Interests:
small RNAs and their associated ribonucleoprotein complexes; the Ribosome; RNA modification; catalytic RNAs; homing endonucleases, group I introns; leucine-rich repeats; hormones and their receptors.
Wayne's publications listed at the the U.S. National Library of Medicine's PubMed database
Past affiliations:
- Cornell University
- University of Massachusetts at Amherst
- University of New Hampshire
email: 
Some Proteopedia Pages to Which I've Contributed
Molecules: Topic Pages
- The Ribosome
- Large Ribosomal Subunit of Haloarcula marismortui
- Interactions between Antibiotics and the Ribosome
- Azithromycin bound to the Large Ribosomal Subunit of Haloarcula marismortui
- Suppression of RNA Silencing by Viruses
- Plant Viral Protein p19 Suppression of RNA Silencing
- Tomato aspermy virus protein 2b Suppression of RNA Silencing
- Flock house virus B2 protein Suppression of RNA Silencing
- Green Fluorescent Protein
- DEAD-box helicase protein Vasa
- RecG in complex with a synthetic three-way DNA junction resembling a stalled replication fork
- Escherichia coli LepA, the ribosomal back translocase
- The Pore Forming Toxin, α-hemolysin
- The Glutamate Receptor (GluA2)
- Luciferase
- Citrate Synthase
- Lamprey Variable Lymphocyte Receptor
- Leucine-Rich Repeat Proteins
- Toll-like Receptors
- Hormone
- Human Follicle-Stimulating Hormone Complexed with its Receptor
- G protein-coupled receptor
- Forkhead box protein M1
- Kink-turn motif
- Pseudouridine
- Zika virus subgenomic flaviviral RNA
- RNase P
- yeast RNase P
- Cubic Diamond Lattice Metal-Organic Framework
- Catalytic Molybdenum Metal-Organic Framework
Topic Pages - Structural Bioinformatics
- About Macromolecular Structure
- Alternate locations
- altloc
- Cation-pi interactions
- Complexes
- Cystine
- Getting Unremediated PDB Files
- Net charge
- Pseudoenzyme
- Interface analysis servers
- Isoelectric point
- Standard Residues and Non-Standard Residues
- Reentrant loops
- Web servers for convenient generation of publication-quality figures for molecular views
Topic Pages - Education
- Teaching Strategies Using Proteopedia
- Teaching Scenes, Tutorials, and Educators' Pages
- Proteopedia:Practical Guide to Advanced Proteopedia Authoring and Its Use in Teaching
- Link above is the online version of Part C of a book chapter entitled Publishing in Proteopedia: The Guide by Jaime Prilusky, Wayne Decatur, and Eric Martz."
- Full Reference: Jaime Prilusky, Wayne Decatur, Eric Martz. Publishing in Proteopedia: The Guide, Advancing Methods for Biomolecular Crystallography. In NATO Science for Peace and Security Series A: Chemistry and Biology 2013, pp 277-295 [doi:10.1007/978-94-007-6232-9_24]
- High school teachers' resources
Meta Pages
- Help:Editing
- Proteopedia:How to Make a Page
- Proteopedia:About
- Proteopedia:Policy
- Proteopedia:Facebook
- Proteopedia:Twitter
- Proteopedia:Macros
- Proteopedia:DIY:Macros
- Proteopedia:Cookbook
- Combine Proteopedia scenes with inline JSmol scripting
- Proteopedia:DIY:Templates
- Jmol
- DRuMS
- Wanted pages
- Pages needing expansion
- Pages needing improvement
Workshops, Lectures, and Seminars
- UPSTATE MEDICAL GS647-021 Nanocourse: Structuring against Coronavirus (April-May) 2020
- UNH BIOCHEM833 Structural Analysis for Non-Structural Biologists Workshop Session Fall Semester (November 8th) 2012
- UNH BIOCHEM833 Structural Analysis for Non-Structural Biologists Introductory Lecture Fall Semester (October 25th) 2012
- Workshop for the NASCE Meeting at the University of Michigan, Ann Arbor, MI July 13 2011
- Workshop for CME at the University of New Hampshire, Durham, NH March 11 2011
- Seminar at the University of New Hampshire, Durham, NH Feb 1st 2011
- Biochem642 Molecular Visualization 2010 Fall Sessions
- Biochem642 Molecular Visualization 2009 Fall Sessions
- Proteopedia Work Session for Chem 791A-Biomolecular Structure
Personal Quicklinks
All Protected Pages
Files Uploaded
Sandboxes
- Sandbox1rpu working out configuration&isosurfaces&dots problems
- Sandbox2hvy test for dots in another file
- Sandbox CsrA
- Sandbox TestMultiSurface
Protected Sandbox Pages
Protected Topic Pages
- User:Wayne_Decatur/Haloarcula Large Ribosomal Subunit
- User:Wayne_Decatur/Haloarcula Large Ribosomal Subunit With Azithromycin
- User:Wayne Decatur/Interactions between Antibiotics and the Ribosome
- User:Wayne Decatur/Suppression of RNA Silencing by Viruses
- User:Wayne Decatur/Plant Viral Protein p19 Suppression of RNA Silencing
- User:Wayne Decatur/Tomato aspermy virus protein 2b Suppression of RNA Silencing
- User:Wayne Decatur/Flock house virus B2 protein Suppression of RNA Silencing
- User:Wayne Decatur/kink-turn motif
- User:Wayne Decatur/Teaching Proteopedia
- User:Wayne Decatur/Editing Getting Unremediated PDB Files
- User:Wayne Decatur/Moving Components or Parts of Structures
- User:Wayne Decatur/Generate Unfolded Structures
- User:Wayne Decatur/Alter Disulfide Bonds in a Structure
- User:Wayne Decatur/4ay9 pymol
- User:Wayne Decatur/Hsp90 Structures with client proteins
- User:Wayne Decatur/Gal 4
- User:Wayne Decatur/mof_dev
- User:Wayne Decatur/Homology Modeling
- User:Wayne Decatur/Sequence analysis tools
- User:Wayne Decatur/Structure analysis tools
- User:Wayne Decatur/Molecular modeling tools
- User:Wayne Decatur/BioWikis
- User:Wayne Decatur/Code for Molecular Structure and Visualization Work
- User:Wayne Decatur/I-Ppo Morph Methods
- User:Wayne Decatur/3kg2 Morph Methods
- User:Wayne Decatur/3fpn Morph methods
- User:Wayne Decatur/3ewsSLASH3g0h Morph methods
- User:Wayne Decatur/humanaGal3hg2toothers morph methods
- User:Wayne Decatur/1cts to 2cts (citrate synthase) morph methods
- User:Wayne Decatur/1ig8 to 3b8a (hexokinase) morph methods
- User:Wayne Decatur/Converting Exported Proteopedia Pages from Jmol to JSmol
Templates
Help
- Proteopedia:Problems
- Jmol Command Reference Manual for advanced scene authoring.
- Jmol Wiki
Useful Resources
Wikitext help
- URLS in external links has the codes for using characters that aren't A-Z a-z 0-9 ._\/~%-+&#?!=()@ in links
- Guide to Wikitext Markup Language (wiki code)
- How to edit illustrates use of nowiki and pre tags.
- Wikitext quick cheat sheet also has how to make link to categories, too
- Categories can be linked to with colon in front
- HTML in wikitext
- Allows cropping of images, in addition to annotating.
- WikiTable Markup Guide
- Editing Wikitext/Tables
- Images: linking to articles using wikitext
