[Credits]

Life Science Database Archive
RPD

Database Description

General information of database

info Database name RPD
info Alternative name Rice Proteome Database
info DOI 
info Creator 
Creator Name:
Setsuko Komatsu
Creator Affiliation:
National Institute of Crop Science, National Agriculture and Food Research Organization
Journal Search:
info Contact address 

2-1-18 Kannondai Tsukuba, Ibaraki 305-8634, Japan
National Institute of Crop Science, National Agriculture and Food Research Organization
Setsuko Komatsu
E-mail: rpd address

info Database classification Proteomics Resources
Plant databases - Rice
info Organism 
Taxonomy Name:
Oryza sativa
Taxonomy ID:
info Database description 

Rice Proteome Database contains information on proteins identified from several organs and organelles on two-dimensional polyacrylamide gel electrophoresis (2D-PAGE) reference maps.

info Features and manner of utilization of database 

Proteins extracted from organs and subcellular compartments in rice on various growing stages were separated by 2D-PAGE. Based on 23 reference maps of 2D-PAGE, each of the proteins was purified and sequenced by gas-phase protein sequencer or mass spectrometry.

14724 identified proteins were mapped by 2D-PAGE. The information on 6011 proteins (e.g. Mw, pI, expression, the amino acid sequence and the result of homology searches) was cataloged and entered in the Rice Proteome Database.

The database is searchable by keyword, accession number, protein name, pI, Mw and amino acid sequence, or by selection of a spot on one of the 2D-PAGE maps. Cross-references are provided to tools for proteomics and to other databases.

info License CC BY-SA Detail
info Background and funding 
Name:
Analysis and database construction for tissue-specific and subcellular-localized proteins from rice.
info Reference(s) 
Article title:
Rice proteome database: a step toward functional analysis of the rice genome.
Author name(s):
Komatsu S.
Journal:
Plant Mol Biol. 2005 Sep;59(1):179-90.
External Links:
 
Article title:
Rice proteomics: a step toward functional analysis of the rice genome.
Author name(s):
Komatsu S, Konishi H, Shen S, Yang G.
Journal:
Mol Cell Proteomics. 2003 Jan;2(1):2-10.
External Links:
 
Article title:
Rice Proteome Database based on two-dimensional polyacrylamide gel electrophoresis: its status in 2003.
Author name(s):
Komatsu S, Kojima K, Suzuki K, Ozaki K, Higo K.
Journal:
Nucleic Acids Res. 2004 Jan 1;32(Database issue):D388-92.
External Links:
 
Article title:
Proteomics of the rice cell: systematic identification of the protein populations in subcellular compartments.
Author name(s):
Tanaka N, Fujita M, Handa H, Murayama S, Uemura M, Kawamura Y, Mitsui T, Mikami S, Tozawa Y, Yoshinaga T, Komatsu S.
Journal:
Mol Genet Genomics. 2004 Jun;271(5):566-76. Epub 2004 Apr 7.
External Links:
 
Article title:
Proteome analysis of rice tissues by two-dimensional electrophoresis: an approach to the investigation of gibberellin regulated proteins.
Author name(s):
Tanaka N, Konishi H, Khan MM, Komatsu S.
Journal:
Mol Genet Genomics. 2004 Jan;270(6):485-96. Epub 2003 Nov 21.
External Links:
 
Article title:
Update and challenges on proteomics in rice.
Author name(s):
Komatsu S, Yano H.
Journal:
Proteomics. 2006 Jul;6(14):4057-68.
External Links:
 

Original website information

info Database maintenance site 

info URL of the original website (Closed) http://gene64.dna.affrc.go.jp/RPD/
info Operation start date 2003/01/07
info Last update date 2004/04/01
info URL of the portal site 
info Whole data download -
info Referenced database 

KOME, NCBI

info Entry list Available
info Query search Available
info Web services Not available
info URL of Web services -
info Need for user registration Not available