PDB Plugin

Compatible with DokuWiki

2016-06-26a

Integrated utility for Protein data base

Last updated on: 2018-10-25
Provides: Syntax
Repository: Source

This extension has not been updated in over 2 years. It may no longer be maintained or supported and may have compatibility issues.

Similar to pubchem, pubmed

Tagged with biology, chemistry, science

By Ikuo Obataya

This plugin creates a link, a searchbox and protein images by using PDB ID.

This plugin caches protein images from RCSB server in /data/media/rcsb_image/ directory, and it caches structure XML summary from NCBI database in /data/media/ncbi_esummary/ directory.

Demo: http://symplus.edu-wiki.org/doku.php/en/pdb_plugin

Functions

{{pdb>[Command]:[PDB ID]}}

Command	item	function
small	image	Show a small image (82px in width) retrieved from RCSB database
medium	image	Show a small image (252px in width) retrieved from RCSB database
large	image	Show a small image (502px in width) retrieved from RCSB database
fullSmall	image link	Show a combination of an image and a short description
searchbox	form	Show a searchbox for the RCSB PDB
link	link	Show a link for the PDB ID
short	link	Show the PDB link and brief description from NCBI Structure database
long	link	Show the PDB link and detailed description from NCBI Structure database
structureID	link	Show a Structure ID for the NCBI database
summaryXML	xml	Show a XML summary data from the NCBI database using Entrez Utilities
clear_summary	-	Clear cached XML files in /data/media/ncbi_esummary
clear_image	-	Clear cached image files in /data/media/rcsb_image