This database has the positional information in the amino acid motif structure. The information is identified by experiments or sequence analysis.
Data name | README |
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Description of data contents | HTML file to describe "DB-SPIRE" data. |
File | README_e.html (English) |
Data name | PROSITE List |
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Description of data contents | The list shows PROSITE entries and PDB entry/chain matching status. |
File | dbspire_prosite_list.zip (29.1 KB) |
Data item | Description |
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prositeLisAC | PROSITE DO |
PROSITE Info | Link to PROSITE Information from prositeLisAC (simple search only) |
prositeLisFamilySize | Number of ACs for this PROSITE DO |
prositeLisDE | Description of this PROSITE DO |
prositeLisPatternSize | Number of "Pattern" ACs for this PROSITE DO |
prositeLisRuleSize | Number of "Rule" ACs for this PROSITE DO |
prositeLisRuleWithPASize | Number of "Pattern" and "Rule" ACs for this PROSITE DO |
prositeLisRuleWithMASize | Number of "Matrix" and "Rule" ACs for this PROSITE DO |
prositeLisMatrixSize | Number of "Matrix" ACs for this PROSITE DO |
prosite3dLisIdSize | Number of PDB entries for this PROSITE DO (in PROSITE) |
prosite3dSeqIdLisSize | Number of PDB entries whose SEQRES matches this PROSITE DO |
prosite3dSeqChainLisSize | Number of PDB chains whose SEQRES matches this PROSITE DO |
prosite3dAtomIdLisSize | Number of PDB entries whose ATOM matches this PROSITE DO |
prosite3dAtomChainLisSize | Number of PDB chains whose ATOM matches this PROSITE DO |
Data name | PROSITE Information |
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Description of data contents | It shows PROSITE entries and PDB entry/chain matching status. |
File | dbspire_prosite_info.zip (54.8 KB) |
Data item | Description |
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prositeAC | PROSITE Accession |
PDB SEQRES | Link to PROSITE - PDB SEQRES matching from prositeAC (simple search only) |
prositeID | PROSITE ID |
prositeIDType | Accession type |
prositeDE | Description of this entry |
prositeDO | PROSITE DO of this entry |
prosite3dSize | Number of PDB entries for this entry (in PROSITE) |
prosite3dSeqIdSize | Number of PDB entries whose SEQRES matches this entry |
prosite3dSeqChainSize | Number of PDB chains whose SEQRES matches this entry |
prosite3dAtomIdSize | Number of PDB entries whose ATOM matches this entry |
prosite3dAtomChainSize | Number of PDB chains whose ATOM matches this entry |
Data name | PROSITE - PDB SEQRES matching |
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Description of data contents | Sequence numbers of PDB entries/chains whose SEQRES matches a PROSITE entry |
File | dbspire_prosite_pdb_seq.zip (4.1 MB) |
Data item | Description |
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prositeAC | PROSITE Accession |
pdbID | PDB ID |
pdbChain | PDB chain |
pdbMatchLine | Sequence numbers of PDB entries/chains whose SEQRES matches this PROSITE entry |
Data name | BLOCKS List |
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Description of data contents | The list shows BLOCKS entries and PDB entry/chain matching status. |
File | dbspire_blocks_list.zip (113 KB) |
Data item | Description |
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blocksFamilyAC | BLOCKS Family Accession |
BLOCKS Info | Link to BLOCKS Information from blocksFamilyAC (simple search only) |
blocksType | Origing of this entry (PRINTS or PROTMAT) |
blocksFamilySize | Number of ACs for this family accession |
blocksPrints | PRINTS Accession (only from PRINTS) |
blocksName | Description of this entry |
blocks3dIdFamilySize | Number of PDB entries annotated with this entry by MAST |
blocks3dChainFamilySize | Number of PDB chains annotated with this entry by MAST |
blocks3dSeqIdFamilySize | Number of PDB entries whose SEQRES matches this entry |
blocks3dSeqChainFamilySize | Number of PDB chains whose SEQRES matches this entry |
blocks3dAtomIdFamilySize | Number of PDB entries whose ATOM matches this entry |
blocks3dAtomChainFamilySize | Number of PDB chains whose ATOM matches this entry |
Data name | BLOCKS Information |
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Description of data contents | It shows BLOCKS entries and PDB entry/chain matching status. |
File | dbspire_blocks_info.zip (305 KB) |
Data item | Description |
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blocksAC | BLOCKS Accession |
PDB SEQRES | Link to BLOCKS - PDB SEQRES matching from BLOCKS AC (simple search only) |
PDB ATOM | Link to BLOCKS - PDB ATOM matching from BLOCKS AC (simple search only) |
blocksACFamily | BLOCKS Family Accession |
Family VS PDB | Link to BLOCKS - matching from BLOCKS AC Family (simple search only) |
blocksID | BLOCKS ID |
blocksDE | Description of this entry |
blocks3dIdSize | Number of PDB entries annotated with this entry by MAST |
blocks3dChainSize | Number of PDB chains annotated with this entry by MAST |
blocks3dSeqIdSize | Number of PDB entries whose SEQRES matches this entry |
blocks3dSeqChainSize | Number of PDB chains whose SEQRES matches this entry |
blocks3dAtomIdSize | Number of PDB entries whose ATOM matches this entry |
blocks3dAtomChainSize | Number of PDB chains whose ATOM matches this entry |
Data name | BLOCKS - PDB matching |
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Description of data contents | PDB entries/chains which matches a BLOCKS entry |
File | dbspire_blocks_pdb.zip (512 KB) |
Data item | Description |
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blocksFamilyAC | BLOCKS Family Accession |
pdbID | PDB ID |
pdbChain | PDB Chain |
Data name | BLOCKS - PDB SEQRES matching |
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Description of data contents | Sequence numbers of PDB entries/chains whose SEQRES matches a BLOCKS entry |
File | dbspire_blocks_pdb_seq.zip (6.4 MB) |
Data item | Description |
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blocksFamilyAC | BLOCKS Accession |
pdbID | PDB ID |
pdbChain | PDB Chain |
pdbMatchLine | Sequence numbers of PDB entries/chains whose SEQRES matches this BLOCKS entry |
Data name | BLOCKS - PDB ATOM matching |
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Description of data contents | Sequence numbers of PDB entries/chains whose ATOM matches a BLOCKS entry |
File | dbspire_blocks_pdb_atom.zip (6.2 MB) |
Data item | Description |
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blocksFamilyAC | BLOCKS Accession |
pdbID | PDB ID |
pdbChain | PDB Chain |
pdbIndex | ATOM Start position |
pdbMatchLine | Sequence numbers of PDB entries/chains whose SEQRES matches this BLOCKS entry |
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 4.0 International.
If you use data from this database, please be sure attribute this database as follows: "DB-SPIRE © Tamotsu Noguchi (National Institute of Advanced Industrial Science and Technology) licensed under CC Attribution-Share Alike 4.0 International".
The summary of the Creative Commons Attribution-Share Alike 4.0 International is found here.
With regard to this database, you are licensed to:
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Tamotsu Noguchi
Tel: 042-495-8736
E mail: noguchit[at]my-pharm[dot]ac[dot]jp
You can freely provide links to all contents in this database. But, contents might be changed without notice.
Date | Update contents |
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2017/02/16 | DB-SPIRE English archive site is opened. |
2005/04/01 | DB-SPIRE (http://mbs.cbrc.jp/DB-SPIRE) is opened. |
Tamotsu Noguchi
Tel: 042-495-8736
E mail: noguchit[at]my-pharm[dot]ac[dot]jp