Hormone-Receptor Database

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[]'''GPCRDB''' is a database of G protein coupled receptors having the information about GPCR sequences, their multiple sequence alignment, phylogenetic tree, c-DNA protein alignment and ligands binding constant .
 +
 +
{| border="1;width:100%; height:200px;style=text-align:center"
 +
|+'''Table I:'''
 +
|-
 +
! style="background:green; color:white"  |GPCR sequences
 +
! style="background:green; color:white" |incl. fragments
 +
! style="background:green; color:white" |cDNAs/pairwise alignments
 +
! style="background:green; color:white" |Families
 +
! style="background:green; color:white" |Multiple sequence alignments (HSSP)
 +
! style="background:green; color:white" |Phylogenetic trees
 +
! style="background:green; color:white" |Ligand binding constants for N families
 +
! style="background:green; color:white" |Depositors of GPCR 3D models
 +
! style="background:green; color:white" |3D models
 +
! style="background:green; color:white" |Point mutations extracted by MuteXt
 +
! style="background:green; color:white" |Corresponding articles
 +
|-
 +
|16764
 +
|7260
 +
|11051
 +
|335
 +
|333
 +
|527
 +
|28
 +
|12
 +
|1909
 +
|8033
 +
|1610
 +
|}
 +
[http://pharminfo.pharm.kyoto-u.ac.jp/services/glida/index.php]'''GLIDA''' is a database thar have the information on both GPCRs and their known ligands.
[http://pharminfo.pharm.kyoto-u.ac.jp/services/glida/index.php]'''GLIDA''' is a database thar have the information on both GPCRs and their known ligands.
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# Cross-searchable between GPCRs and their ligands.
# Cross-searchable between GPCRs and their ligands.
-
This database use the GPCRDb classification system for classifying GPCR and Clustering Method for classifying Ligands.It has similarity search sytem for both ligand and GPCR.
+
{| border="1;width:100%; height:200px;style=text-align:center"
 +
|+'''Table I:'''
 +
|-
 +
! style="background:green; color:white"  |All data 
 +
! style="background:green; color:white" |Link to Entrez gene
 +
! style="background:green; color:white" |Link to GPCRDB
 +
! style="background:green; color:white" |Link to uniport
 +
! style="background:green; color:white" |Link to IUPHAR
 +
! style="background:green; color:white" |Link to KEGG
 +
! style="background:green; color:white" |Ligands
 +
! style="background:green; color:white" |GPCR-Ligands Pair
 +
! style="background:green; color:white" |Activity
 +
|-
 +
|3738
 +
|3073
 +
|3738
 +
|3738
 +
|446
 +
|595
 +
|24077
 +
|39140
 +
|39140
 +
|-
 +
|}
-
[http://www.gpcr.org/7tm/ligand/Seeman/S1A.html]'''IUPHAR''' A Database of GPCR Protein
+
 
 +
This database use the GPCRDb classification system for classifying GPCR and Clustering Method for classifying Ligands.It has similarity search sytem for both ligand and GPCR.
 +
[]'''IUPHAR''' A Database of GPCR Protein
[http://endonet.bioinf.med.uni-goettingen.de/]'''EndoNet''' is a database that provides information about endocrine networks. Using information about hormones' donor and acceptor cells a network is built that represents hormonal signaling pathways as a bipartite graph comprising hormones and tissues as node classes. The involved components, the intercellular information flow and the inhibition or activation effects are displayed.
[http://endonet.bioinf.med.uni-goettingen.de/]'''EndoNet''' is a database that provides information about endocrine networks. Using information about hormones' donor and acceptor cells a network is built that represents hormonal signaling pathways as a bipartite graph comprising hormones and tissues as node classes. The involved components, the intercellular information flow and the inhibition or activation effects are displayed.
Line 13: Line 68:
[http://lipidbank.jp/]'''LipidBank''' is an open, publicly free database of natural lipids including fatty acids, glycerolipids, sphingolipids, steroids, and various vitamins.The database contains more than 6000 unique molecular structures (ChemDraw cdx format, MDL MOL format), their lipid names (common name, IUPAC), spectral information (mass, UV, IR, NMR and others), and most importantly, literature information.
[http://lipidbank.jp/]'''LipidBank''' is an open, publicly free database of natural lipids including fatty acids, glycerolipids, sphingolipids, steroids, and various vitamins.The database contains more than 6000 unique molecular structures (ChemDraw cdx format, MDL MOL format), their lipid names (common name, IUPAC), spectral information (mass, UV, IR, NMR and others), and most importantly, literature information.
-
[http://www.lipidmaps.org/] The '''LIPID MAPS'''(LIPID Metabolites And Pathways Strategy) structure database now contains a total of 10,789 entries, including 2688 Fatty acyls (FA), 3009 Glycerolipids (GL), 1971 Glycerphospholipids (GP), 621 Sphingolipids (SP), 1745 Sterol lipids (ST), 609 Prenol lipids (PR), 10 Saccharolipids (SL), and 136 Polyketides (PK).
+
{| border="1;width:100%; height:200px;style=text-align:center"
 +
|+'''Table I:'''
 +
|-
 +
! style="background:green; color:white"  |All data 
 +
! style="background:green; color:white" |Acylglycerol
 +
! style="background:green; color:white" |Bile acid
 +
! style="background:green; color:white" |Derived lipid
 +
! style="background:green; color:white" |Eicosanoid
 +
! style="background:green; color:white" |Ether type lipid
 +
! style="background:green; color:white" |Fat soluble vitamin
 +
! style="background:green; color:white" |Glycolipid
 +
! style="background:green; color:white" |Isoprenoid
 +
! style="background:green; color:white" |Lipid peroxide
 +
! style="background:green; color:white" |Lipoamino acid
 +
! style="background:green; color:white" |Lipopolysaccharide
 +
! style="background:green; color:white" |Lipoprotein
 +
! style="background:green; color:white" |Mycolic acid
 +
! style="background:green; color:white" |Phospholipid
 +
! style="background:green; color:white" |Steroid
 +
! style="background:green; color:white" |Wax
 +
|-
 +
|7009
 +
|574
 +
|674
 +
|1065
 +
|329
 +
|547
 +
|1219
 +
|696
 +
|112
 +
|5
 +
|5
 +
|734
 +
|12
 +
|203
 +
|341
 +
|479
 +
|14
 +
|-
 +
|}
 +
 
 +
[http://www.lipidmaps.org/] The '''LIPID MAPS'''(LIPID Metabolites And Pathways Strategy) structure database .
 +
{| border="1;width:100%; height:200px;style=text-align:center"
 +
|+'''Table I:'''
 +
|-
 +
! style="background:green; color:white" |Total Sequence
 +
! style="background:green; color:white" |Fatty acyls (FA)  
 +
! style="background:green; color:white" |Glycerolipids (GL)  
 +
! style="background:green; color:white" |Glycerphospholipids (GP)  
 +
! style="background:green; color:white" |Sphingolipids (SP)
 +
! style="background:green; color:white" |Sterol lipids (ST)
 +
! style="background:green; color:white" |Prenol lipids (PR)  
 +
! style="background:green; color:white" |Saccharolipids (SL)
 +
! style="background:green; color:white" |Polyketides (PK)
 +
|-
 +
|10,789 
 +
|2688
 +
|3009
 +
|1971
 +
|621
 +
|1745
 +
|609
 +
|10
 +
|136
 +
|-
 +
|}
[http://pepbank.mgh.harvard.edu/]'''PepBank''' is a database of peptides based on sequence text mining and public peptide data sources. Only peptides that are 20 amino acids or shorter are stored. This will show a heat map for a paticular peptide that show their relative tendency in cancer, cardiovascular disease, diabetes related, Apoptosis related, Angiogenesis related,Molecular imaging related,binding data avialable.
[http://pepbank.mgh.harvard.edu/]'''PepBank''' is a database of peptides based on sequence text mining and public peptide data sources. Only peptides that are 20 amino acids or shorter are stored. This will show a heat map for a paticular peptide that show their relative tendency in cancer, cardiovascular disease, diabetes related, Apoptosis related, Angiogenesis related,Molecular imaging related,binding data avialable.
-
[http://biophysics.biol.uoa.gr/gpDB/]A relational database of G-proteins and their interactions with GPCRs and effector molecules. The sequences are classified according to a hierarchy of different classes, families and sub-families, based on extensive literature search. The main innovation besides the classification of both G-proteins and GPCRs is the relational model of the database, describing the known coupling specificity of the GPCRs to their respective alpha subunit of G-proteins and also the interaction between G-protein subfamilies and specific effector types, a unique feature not available in any other database. There is full sequence information with cross-references to publicly available databases, and the user may submit advanced queries for text search. Furthermore there is an interface for running BLAST against the database and a pattern search tool. The database will be very useful for the study of G-protein/GPCR and G-protein/effector interactions.
+
[http://biophysics.biol.uoa.gr/gpDB/]'''gpDB''' is a relational database of G-proteins and their interactions with GPCRs and effector molecules. The sequences are classified according to a hierarchy of different classes, families and sub-families, based on extensive literature search. The main innovation besides the classification of both G-proteins and GPCRs is the relational model of the database, describing the known coupling specificity of the GPCRs to their respective alpha subunit of G-proteins and also the interaction between G-protein subfamilies and specific effector types, a unique feature not available in any other database. There is full sequence information with cross-references to publicly available databases, and the user may submit advanced queries for text search. Furthermore there is an interface for running BLAST against the database and a pattern search tool. The database will be very useful for the study of G-protein/GPCR and G-protein/effector interactions.
 +
 
 +
{| border="1;width:100%; height:200px;style=text-align:center"
 +
|+'''Table I:'''
 +
|-
 +
! style="background:green; color:white" |G-proteins
 +
! style="background:green; color:white" |GPCRs
 +
! style="background:green; color:white" |Effectors
 +
! style="background:green; color:white" |Species
 +
|-
 +
|391 entries
 +
|2738 entries
 +
|1390 entries
 +
|469
 +
|}
 +
[]'''GPCRIP''' database having information about the GPCR interacting proteins.
 +
{| border="1;width:100%; height:200px;style=text-align:center"
 +
|+'''Table I:'''
 +
|-
 +
! style="background:green; color:white" |GPCR interacting protein sequences
 +
! style="background:green; color:white" |incl. fragments
 +
! style="background:green; color:white" |Unclassified sequences
 +
! style="background:green; color:white" |cDNAs/pairwise alignments
 +
! style="background:green; color:white" |Families
 +
! style="background:green; color:white" |Multiple sequence alignments (HSSP)
 +
! style="background:green; color:white" |Phylogenetic trees
 +
|-
 +
|640
 +
|222
 +
|0
 +
|469
 +
|10
 +
|10
 +
|20
 +
|}
 +
[http://www.biomedcomp.com/GPCR.html]A database having lists the G protein coupled receptors expressed endogenously in various cell lines.
 +
 
 +
[]'''NucleaRDB is a database of nuclear receptor proteins.
 +
{| border="1;width:100%; height:200px;style=text-align:center"
 +
|+'''Table I:'''
 +
|-
 +
! style="background:green; color:white" |Total Sequence
 +
! style="background:green; color:white" |Fragment
 +
! style="background:green; color:white" |Unclassified
 +
! style="background:green; color:white" |Alignment
 +
! style="background:green; color:white" |Family
 +
! style="background:green; color:white" |Multiple alignment
 +
! style="background:green; color:white" |Tree
 +
! style="background:green; color:white" |Point Mutation
 +
|-
 +
|2013
 +
|842
 +
|443
 +
|1602
 +
|124
 +
|110
 +
|118
 +
|2226
 +
|-
 +
[]NuRsa(Nuclear Receptor Signaling Atlas)
 +
{| border="1;width:100%; height:200px;style=text-align:center"
 +
|+'''Table I:'''
 +
|-
 +
! style="background:green; color:white" |Ligand
 +
! style="background:green; color:white" |Receptor
 +
! style="background:green; color:white" |Coregulator
 +
|-
 +
|88
 +
|104
 +
|347
 +
|-
 +
|}

Current revision

[]GPCRDB is a database of G protein coupled receptors having the information about GPCR sequences, their multiple sequence alignment, phylogenetic tree, c-DNA protein alignment and ligands binding constant .

Table I:
GPCR sequences incl. fragments cDNAs/pairwise alignments Families Multiple sequence alignments (HSSP) Phylogenetic trees Ligand binding constants for N families Depositors of GPCR 3D models 3D models Point mutations extracted by MuteXt Corresponding articles
16764 7260 11051 335 333 527 28 12 1909 8033 1610

[1]GLIDA is a database thar have the information on both GPCRs and their known ligands.

  1. A complex information system covering biological information of GPCRs as well as chemical information of their known ligands.
  2. Two starting points : Enterable either by GPCR search or ligand search.
  3. Cross-searchable between GPCRs and their ligands.
Table I:
All data Link to Entrez gene Link to GPCRDB Link to uniport Link to IUPHAR Link to KEGG Ligands GPCR-Ligands Pair Activity
3738 3073 3738 3738 446 595 24077 39140 39140


This database use the GPCRDb classification system for classifying GPCR and Clustering Method for classifying Ligands.It has similarity search sytem for both ligand and GPCR. []IUPHAR A Database of GPCR Protein

[2]EndoNet is a database that provides information about endocrine networks. Using information about hormones' donor and acceptor cells a network is built that represents hormonal signaling pathways as a bipartite graph comprising hormones and tissues as node classes. The involved components, the intercellular information flow and the inhibition or activation effects are displayed.

[3]LipidBank is an open, publicly free database of natural lipids including fatty acids, glycerolipids, sphingolipids, steroids, and various vitamins.The database contains more than 6000 unique molecular structures (ChemDraw cdx format, MDL MOL format), their lipid names (common name, IUPAC), spectral information (mass, UV, IR, NMR and others), and most importantly, literature information.

Table I:
All data Acylglycerol Bile acid Derived lipid Eicosanoid Ether type lipid Fat soluble vitamin Glycolipid Isoprenoid Lipid peroxide Lipoamino acid Lipopolysaccharide Lipoprotein Mycolic acid Phospholipid Steroid Wax
7009 574 674 1065 329 547 1219 696 112 5 5 734 12 203 341 479 14

[4] The LIPID MAPS(LIPID Metabolites And Pathways Strategy) structure database .

Table I:
Total Sequence Fatty acyls (FA) Glycerolipids (GL) Glycerphospholipids (GP) Sphingolipids (SP) Sterol lipids (ST) Prenol lipids (PR) Saccharolipids (SL) Polyketides (PK)
10,789 2688 3009 1971 621 1745 609 10 136

[5]PepBank is a database of peptides based on sequence text mining and public peptide data sources. Only peptides that are 20 amino acids or shorter are stored. This will show a heat map for a paticular peptide that show their relative tendency in cancer, cardiovascular disease, diabetes related, Apoptosis related, Angiogenesis related,Molecular imaging related,binding data avialable.

[6]gpDB is a relational database of G-proteins and their interactions with GPCRs and effector molecules. The sequences are classified according to a hierarchy of different classes, families and sub-families, based on extensive literature search. The main innovation besides the classification of both G-proteins and GPCRs is the relational model of the database, describing the known coupling specificity of the GPCRs to their respective alpha subunit of G-proteins and also the interaction between G-protein subfamilies and specific effector types, a unique feature not available in any other database. There is full sequence information with cross-references to publicly available databases, and the user may submit advanced queries for text search. Furthermore there is an interface for running BLAST against the database and a pattern search tool. The database will be very useful for the study of G-protein/GPCR and G-protein/effector interactions.

Table I:
G-proteins GPCRs Effectors Species
391 entries 2738 entries 1390 entries 469

[]GPCRIP database having information about the GPCR interacting proteins.

Table I:
GPCR interacting protein sequences incl. fragments Unclassified sequences cDNAs/pairwise alignments Families Multiple sequence alignments (HSSP) Phylogenetic trees
640 222 0 469 10 10 20

[7]A database having lists the G protein coupled receptors expressed endogenously in various cell lines.

[]NucleaRDB is a database of nuclear receptor proteins.

[]NuRsa(Nuclear Receptor Signaling Atlas)
Table I:
Total Sequence Fragment Unclassified Alignment Family Multiple alignment Tree Point Mutation
2013 842 443 1602 124 110 118 2226
Table I:
Ligand Receptor Coregulator
88 104 347
Retrieved from "http://277988.efsst.group/drugpedia/index.php/Hormone-Receptor_Database"