RPSD
2015/10/16HTTPS Site: https://dbarchive.biosciencedbc.jp/data/rpsd/
The database of protein 3D structures of seven kinds of plants such as rice.
README Content
1. Database Component
2. Data Description
2.1 README
| Data name | README |
| Description of data contents | HTML file to describe "RPSD" data. |
| File | README_e.html(English) |
2.2 Main
| Data name | Main |
| Description of data contents | List of information about the three-dimensional structures of the proteins of plant seven kinds, such as rice. |
| File | rpsd_main_sjis.zip (Shift JIS, 120 KB) rpsd_main_utf8.zip (UTF-8, 120 KB) |
Data items are the following:
| Data item | Description |
|---|---|
| PDB ID | PDB ID of the protein |
| Japanese name | Japanese name of the organism species |
| English name | English name of the organism species |
| Scientific name | Scientific name of the organism species |
| Protein name | Name of the protein |
| Gene name | Gene name of the protein |
| Source/Organism | Organism species of the protein |
| Compound | Compound of the protein |
| Classification | Category of the protein |
| EC number | Enzyme Commission number of the protein |
| Authors | Authors of the reference |
| Reference | Reference has published the structure of the protein |
| Key word | Keyword of the function of the protein |
| Cross reference | Cross-reference with other databases |
| Experimental method | Experimental method for the protein structure determination |
| Sequence characteristics | Characteristics of the amino acid sequence |
| Sequence | Amino acid sequence of the protein |
| Image | Image file name of the three-dimensional structure of the protein |
2.3 Images
| Data name | Images |
| Description of data contents | Images of the three-dimensional structures of the proteins of plant seven kinds, such as rice. |
| File | rpsd_images.zip (18.3 MB) |
3. License
You may use this database in compliance with the terms and conditions of the license described below. The license specifies the license terms regarding the use of this database and the requirements you must follow in using this database.
The license for this database is specified in the Creative Commons Attribution-Share Alike 2.1 Japan.
If you use data from this database, please be sure attribute this database as follows: "Summary information of Protein © National Institute of Agrobiological Sciences licensed under CC Attribution-Share Alike 2.1 Japan".
The summary of the Creative Commons Attribution-Share Alike 2.1 Japan is found here.
With regard to this database, you are licensed to:
- freely access part or whole of this database, and acquire data;
- freely redistribute part or whole of the data from this database; and
- freely create and distribute database and other derivative works based on part or whole of the data from this database,
under the license, as long as you comply with the following conditions:
- You must attribute this database in the manner specified by the author or licensor when distributing part or whole of this database or any derivative work.
- You must distribute any derivative work based on part or whole of the data from this database under the license.
- You need to contact the Licensor shown below to request a license for use of this database or any part thereof not licensed under the license.
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602, Japan
National Institute of Agrobiological Sciences
Toshimasa Yamazaki
E-mail: tyamazak[at]nias[dot]affrc[dot]go[dot]jp
4. Update History
| Date | Update contents |
|---|---|
| 2015/10/16 |
|
| 2014/11/10 | RPSD English archive site is opened. |
| 2005/02/14 | Last update at RPSD (http://structure.rice.dna.affrc.go.jp/plant/index.html). |
5. Literature
-6. Contact address
When you have any question about "RPSD", contact the following:2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602, Japan
National Institute of Agrobiological Sciences
Toshimasa Yamazaki
E-mail: tyamazak[at]nias[dot]affrc[dot]go[dot]jp