Agriculture Reference
In-Depth Information
Table 2.8   Integrative databases for Structural Proteomics analysis in plants
Database Name
Plant Species/Purpose
Uniform Resource Locator
(URL)
International Structural
Genomics Organization
ISGO main web site: Reports,
Activities and Publications
http://www.isgo.org/
Welcome to RSGI
(RIKEN)
RIKEN Structural Genomic
Proteomic Initiative—Home
page
http://www.rsgi.riken.jp/
RSGI (RIKEN Structural
Genomics/Proteomics
Initiative) structure |
Integrated Database of
Protein | SciNetS
Integrated database for pro-
tein structure, including
Arabidopsis
https://database.riken.jp/sw/
links/en/cria266s4i/6p
Download | (RIKEN
Structural Genomics/
Proteomics Initiative)
Somantic Ontology
Class Database | RDF/
OWL
Download web page for most
of the RIKEN proteomic
software
http://biolod.org/class/
cria266s4i/RSGI_RIKEN_
Structural_Genomics_Pro-
teomics_Initiative_structure
Home : PSI-Nature
Structural Biology
Knowledgebase
Web site to keep informed on
structural genomics and
biology
http://www.sbkb.org/
The Protein Structure
Initiative: achievements
and visions for the
future—F1000 Biology
Web site for research articles
and methods on structural
genomics and structural
biology
http://f1000.com/reports/b/4/7
PSI Pilot Phase Fact
Sheet—National Insti-
tute of General Medical
Sciences
NIH web site for proteomics
fact sheets and protein infor-
mation in mainly the health
sciences
http://www.nigms.nih.gov/
Research/FeaturedPrograms/
PSI/Background/PilotFacts.
htm
RCSB Protein Data
Bank—RCSB PDB
Portal and search engine
-Biological Macromolecular
Structures and Resouces
http://www.pdb.org/pdb/home/
home.do
CLC bio: Integrated 3D
molecule viewer
Integrated workbench for
analyzing 2D gel data and
MS peptide fingerprinting
profiles
http://www.clcbio.com/index.
php?id=500
I-TASSER server for
protein structure and
function prediction
Complete function and structure
prediction for over 1,00,000
proteins from international
sources linked to the NCBI
protein databanks
http://zhanglab.ccmb.med.
umich.edu/I-TASSER/
DisEMBL 1.5—Predic-
tors of intrinsic protein
disorder
Intrinsic protein disorder
prediction web site linked to
SWISS protein identification
http://dis.embl.de/
GTOP database
Genomes TO Protein structure
and function site; unfor-
tunately contains no plant
data, but has interesting
bacteria and virus
http://spock.genes.nig.
ac.jp/~genome/gtop.html
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