Transdab - Revision history

WikiSysop at 08:16, 22 April 2008

2008-04-22T08:16:21Z

WikiSysop at 06:31, 10 December 2007

2007-12-10T06:31:09Z

WikiSysop at 06:55, 18 September 2007

2007-09-18T06:55:59Z

WikiSysop at 06:53, 18 September 2007

2007-09-18T06:53:42Z

193.6.138.71 at 06:32, 5 September 2007

2007-09-05T06:32:50Z

193.6.138.71 at 06:31, 5 September 2007

2007-09-05T06:31:48Z

193.6.138.71 at 06:13, 5 September 2007

2007-09-05T06:13:28Z

193.6.138.71 at 06:11, 5 September 2007

2007-09-05T06:11:20Z

WikiSysop at 12:24, 24 July 2007

2007-07-24T12:24:20Z

WikiSysop at 12:22, 24 July 2007

2007-07-24T12:22:49Z

← Older revision		Revision as of 08:16, 22 April 2008
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	==Acknowledgements==		==Acknowledgements==
−	We thank to Istvan Andrejkovics, Gyorgy Fenyofalvi, Gabor Zachuczky and Peter Bagossi for their help. This work was supported by grant from the [http://www.esf.org/esf_article.php?language=0&article=94&domain=3&activity=1 ESF Protein Cross-Linking - The ESF Transglutaminases Programme (PCL)]	+	We thank to [http://scienceroll.com/about/ Meskó, Bertalan], Istvan Andrejkovics, Gyorgy Fenyofalvi, Gabor Zachuczky and Peter Bagossi for their help. This work was supported by grant from the [http://www.esf.org/esf_article.php?language=0&article=94&domain=3&activity=1 ESF Protein Cross-Linking - The ESF Transglutaminases Programme (PCL)]

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 For intrinsic disorder prediction there is a link to one of most widely used predictor [http://iupred.enzim.hu/ IUPred].
-Beside the substrates of the transglutaminase activity, TRANSDAB contains the substrates of the [http://genomics.dote.hu/wiki/index.php/Category:Kinase kinase] and [http://genomics.dote.hu/wiki/index.php/Category:Deamidase deamidase] activities and the interaction partners are listed as well.
+Beside the substrates of the transglutaminase activity, TRANSDAB contains the substrates of the [http://genomics.dote.hu/wiki/index.php/Category:Kinase kinase] and [http://genomics.dote.hu/wiki/index.php/Category:Deamidase deamidase] activities as well.
 ==Transglutaminase review articles==

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-'''Transdab''' is a transglutaminase substrate database containing {{NUMBEROFARTICLES}} entries, the substrates for several transglutaminase types such as [[:Category:FXIIIa|FXIIIa]], [[:Category:Keratinocyte transglutaminase|TG1]], [[:Category:Tissue transglutaminase|TG2]], [[:Category:Epidermal transglutaminase|TG3]], [[:Category:TG5|TG5]] and [[:Category:Microbial transglutaminase|TGM]].
+'''TRANSDAB''' is a transglutaminase substrate database containing {{NUMBEROFARTICLES}} entries, the substrates for several transglutaminase types such as [[:Category:FXIIIa|FXIIIa]], [[:Category:Keratinocyte transglutaminase|TG1]], [[:Category:Tissue transglutaminase|TG2]], [[:Category:Epidermal transglutaminase|TG3]], [[:Category:TG5|TG5]] and [[:Category:Microbial transglutaminase|TGM]].
 Our aim was to generate a structural database of translgutaminase substrate proteins which provides information about the microenvironment of reactive and non-reactive glutamine and lysine residues. There is an entry for each substrate protein which includes the substrate protein's name, the determination type (in vitro/in situ), the source organism where it was studied and its intracellular/extracellular localization.
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 The crystal structure is also accessible via link to the RCSB PDB through the PDBID. The surface accessibility data obtained with [http://www.netasa.org/asaview/ ASAView] web server for those substrate proteins where the modification site is known and the crystal structure contains these residues is available in .pdf and text format.
 For intrinsic disorder prediction there is a link to one of most widely used predictor [http://iupred.enzim.hu/ IUPred].
 Beside the substrates of the transglutaminase activity, TRANSDAB contains the substrates of the kinase and deamidase activities and interaction partners as well.
 ==Transglutaminase review articles==

@@ Line 6: / Line 6: @@
 The structural information are represented by a picture gallery of reactive glutamine and lysine residues and video image of the rotating molecule, all drawn with [http://www.ks.uiuc.edu/Research/vmd/ VMD] using the structural information from crystal structure files deposited in protein databank [http://www.rcsb.org/pdb/home/home.do RCSB PDB]. For color codes, please click [[Color codes|here]].
-The crystal structure is also accessible via link to the RCSB PDB through the PDBID. The surface accessibility data obtained with ASAView web server for those substrate proteins where the modification site is known and the crystal structure contains these residues is available in .pdf and text format.
+The crystal structure is also accessible via link to the RCSB PDB through the PDBID. The surface accessibility data obtained with [http://www.netasa.org/asaview/ ASAView] web server for those substrate proteins where the modification site is known and the crystal structure contains these residues is available in .pdf and text format.
 For intrinsic disorder prediction there is a link to one of most widely used predictor [http://iupred.enzim.hu/ IUPred].
 ==Transglutaminase review articles==

@@ Line 7: / Line 7: @@
 The structural information are represented by a picture gallery of reactive glutamine and lysine residues and video image of the rotating molecule, all drawn with [http://www.ks.uiuc.edu/Research/vmd/ VMD] using the structural information from crystal structure files deposited in protein databank [http://www.rcsb.org/pdb/home/home.do RCSB PDB]. For color codes, please click [[Color codes|here]].
 The crystal structure is also accessible via link to the RCSB PDB through the PDBID. The surface accessibility data obtained with ASAView web server for those substrate proteins where the modification site is known and the crystal structure contains these residues is available in .pdf and text format.
-For intrinsic disorder prediction there is a link to one of most widely used predictor [IUPred].
+For intrinsic disorder prediction there is a link to one of most widely used predictor [http://iupred.enzim.hu/ IUPred].
 ==Transglutaminase review articles==

@@ Line 5: / Line 5: @@
 Also there are specified the reactive residues and for literature reference there is a PubMed identification code given with a link to the relevant PubMed Abstract. The Expasy/TrEMBL entry is also accessible and there is a small part of the sequence given, with reactive residues in italic, to ease the database searches.
-The structure is represented by several links; access to the molecule's crystal structure in the [http://www.rcsb.org/pdb/home/home.do RCSB PDB] through its PDB ID, links to the molecule's structure drawn with [http://www.ks.uiuc.edu/Research/vmd/ VMD] using data from PDB files. For color codes, please click [[Color codes|here]].
+The structural information are represented by a picture gallery of reactive glutamine and lysine residues and video image of the rotating molecule, all drawn with [http://www.ks.uiuc.edu/Research/vmd/ VMD] using the structural information from crystal structure files deposited in protein databank [http://www.rcsb.org/pdb/home/home.do RCSB PDB]. For color codes, please click [[Color codes|here]].
 ==Transglutaminase review articles==

@@ Line 5: / Line 5: @@
 Also there are specified the reactive residues and for literature reference there is a PubMed identification code given with a link to the relevant PubMed Abstract. The Expasy/TrEMBL entry is also accessible and there is a small part of the sequence given, with reactive residues in italic, to ease the database searches.
-The structure is represented by several links; access to the molecule's crystal structure in the [http://www.rcsb.org/pdb/home/home.do RCSB PDB] through its PDB ID, links to the molecule's structure drawn with [http://www.ks.uiuc.edu/Research/vmd/ VMD] using data from PDB files. The images are attached as Power Point Presentations and .avi files also and it may take several seconds to start rotating the molecule. For colour codes, please click here.
+The structure is represented by several links; access to the molecule's crystal structure in the [http://www.rcsb.org/pdb/home/home.do RCSB PDB] through its PDB ID, links to the molecule's structure drawn with [http://www.ks.uiuc.edu/Research/vmd/ VMD] using data from PDB files. The images are attached as .avi files also and it may take several seconds to start rotating the molecule. For colour codes, please click here.
 ==Transglutaminase review articles==
@@ Line 17: / Line 17: @@
 ==Acknowledgements==
-We thank to Gyorgy Fenyofalvi, Gabor Zachuczky, Istvan Andrejkovics and Peter Bagossi for their help. This work was supported by grant from the [http://www.esf.org/esf_article.php?language=0&article=94&domain=3&activity=1 ESF Protein Cross-Linking - The ESF Transglutaminases Programme (PCL)]
+We thank to Istvan Andrejkovics, Gyorgy Fenyofalvi, Gabor Zachuczky and Peter Bagossi for their help. This work was supported by grant from the [http://www.esf.org/esf_article.php?language=0&article=94&domain=3&activity=1 ESF Protein Cross-Linking - The ESF Transglutaminases Programme (PCL)]