http://wiki.christophchamp.com/index.php?action=history&feed=atom&title=Quick2D 2026-04-30T15:22:52Z Revision history for this page on the wiki MediaWiki 1.26.2 http://wiki.christophchamp.com/index.php?title=Quick2D&diff=5135&oldid=prev 2008-06-24T18:29:19Z

<p></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;' lang='en'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 18:29, 24 June 2008</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l12" >Line 12:</td> <td colspan="2" class="diff-lineno">Line 12:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;VSL2 : K. Peng, P. Radivojac, S. Vucetic, A. K. Dunker, and Z. Obradovic (2006), Length-Dependent Prediction of Protein Intrinsic Disorder. BMC Bioinformatics 7, 208.</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;VSL2 : K. Peng, P. Radivojac, S. Vucetic, A. K. Dunker, and Z. Obradovic (2006), Length-Dependent Prediction of Protein Intrinsic Disorder. BMC Bioinformatics 7, 208.</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>:Z. Obradovic, K. Peng, S. Vucetic, P. Radivojac, and A. K. Dunker, Exploiting Heterogeneous Sequence Properties Improves Prediction of Protein Disorder (2005). Proteins 61(S7), 176-182. &#160;</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>:Z. Obradovic, K. Peng, S. Vucetic, P. Radivojac, and A. K. Dunker, Exploiting Heterogeneous Sequence Properties Improves Prediction of Protein Disorder (2005). Proteins 61(S7), 176-182. &#160;</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">==Results==</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">*SS = Alpha-Helix / Beta-Sheet Secondary Structure</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">*CC = Coiled Coils</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">*TM = Transmembrane ('+'=outside, '-'=inside)</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">*DO = Disorder</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">*SO = Solvent accessibility (A '''b'''uried residue has at most 25% of its surface exposed to the solvent.)</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==External links==</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==External links==</div></td></tr> </table>

Christoph http://wiki.christophchamp.com/index.php?title=Quick2D&diff=5134&oldid=prev 2008-06-24T18:25:12Z

<p></p> <p><b>New page</b></p><div>'''Quick2D''' is an Online server that gives you an overview of secondary structure features like alpha-helices, extended beta-sheets, coiled coils, transmembrane helices and disorder regions. Predictions by PSIPRED, JNET, Prof(Rost), Prof(Ouali), Coils, MEMSAT2, HMMTOP, DISOPRED2, and VSL2. <br /> <br /> ==Features==<br /> ;PSIPRED : D. T. Jones (1999) Protein secondary structure prediction based on position-specific scoring matrices. Journal of Molecular Biology 292, 195-202.<br /> ;JNET : J. A. Cuff and G. J. Barton (1999) Application of enhanced multiple sequence alignment profiles to improve protein secondary structure prediction. Proteins 40, 502-511.<br /> ;PROF : M. Ouali and R. D. King (2000) Cascaded multiple classifiers for secondary structure prediction. Protein Science 9, 1162-1176.<br /> ;PROF : B. Rost (2001) Protein secondarystructure prediction continues to rise. Journal of Structural Biology 134, 204-218.<br /> ;COILS : A. N. Lupas, M. Van Dyke and J. Stock (1991) Predicting Coiled Coils from Protein Sequences. Science 252, 1162-1164.<br /> ;MEMSAT2 : D. T. Jones, W. R. Taylor and J. M. Thornton (1994) A model recognition approach to the prediction of all-helical membrane protein structure and topology. Biochemistry 33, 3038-3049.<br /> ;HMMTOP : G. E. Tusnády and I. Simon (1998) Principles Governing Amino Acid Composition of Integral Membrane Proteins: Applications to Topology Prediction. Journal of Molecular Biology 283, 489-506.<br /> ;DISOPRED2 : J. J. Ward, J. S. Sodhi, L. J. McGuffin, B. F. Buxton and D. T. Jones (2004) Prediction and Functional Analysis of Native Disorder in Proteins from the Three Kingdoms of Life. Journal of Molecular Biology 337(3), 635-45.<br /> ;VSL2 : K. Peng, P. Radivojac, S. Vucetic, A. K. Dunker, and Z. Obradovic (2006), Length-Dependent Prediction of Protein Intrinsic Disorder. BMC Bioinformatics 7, 208.<br /> :Z. Obradovic, K. Peng, S. Vucetic, P. Radivojac, and A. K. Dunker, Exploiting Heterogeneous Sequence Properties Improves Prediction of Protein Disorder (2005). Proteins 61(S7), 176-182. <br /> <br /> ==External links==<br /> *[http://toolkit.tuebingen.mpg.de/quick2_d Quick2D Server]<br /> <br /> [[Category:Bioinformatics]]</div>

Christoph