TALOS - Revision history

Krishna: /* Generating TALOS dihedral angle constraints with CYANA (UB) */

2014-01-09T19:33:43Z

Generating TALOS dihedral angle constraints with CYANA (UB)

← Older revision		Revision as of 19:33, 9 January 2014
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	#Create a subdirectory (for example, <tt>structure/cyana21/talos</tt>) and copy the latest sequence and atom list files there. It is convenient to have them named <tt>XXXX.seq</tt> and <tt>XXXX.prot</tt>, where <tt>XXXX</tt> is an NESG target ID or other protein name. When using CARA, export the chemical shifts as an atom list file in this directory.		#Create a subdirectory (for example, <tt>structure/cyana21/talos</tt>) and copy the latest sequence and atom list files there. It is convenient to have them named <tt>XXXX.seq</tt> and <tt>XXXX.prot</tt>, where <tt>XXXX</tt> is an NESG target ID or other protein name. When using CARA, export the chemical shifts as an atom list file in this directory.
	#Create and init.cya in this directory as described in "[[NESG:CYANAInitFile\|Creating an init.cya file for CYANA 2.1]]" or copy a previously used file.		#Create and init.cya in this directory as described in "[[NESG:CYANAInitFile\|Creating an init.cya file for CYANA 2.1]]" or copy a previously used file.
	#Start CYANA and type: <pre>read prot XXXX.prot		#Start CYANA and type:
			<pre> read prot XXXX.prot
			taloslist XXXX
	</pre>		</pre>

	~~taloslist XXXX~~

	#This will create the TALOS input file <tt>XXXX.tab</tt>. In this file rename all "H" atoms to "HN".		#This will create the TALOS input file <tt>XXXX.tab</tt>. In this file rename all "H" atoms to "HN".

TheresaRamelot at 15:39, 4 February 2013

2013-02-04T15:39:48Z

← Older revision		Revision as of 15:39, 4 February 2013
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	=== '''Recommendations for Using TALOS constraints in CYANA calculations''' ===		=== '''Recommendations for Using TALOS constraints in CYANA calculations''' ===

			*The recommended conservative approach is to apply TALOS constraints for regular secondary structure elements (as predicted by CSI, for example) only, excluding the flanking residues.
			*If the NOE constraint network is quite dense, the best approach is to run an automated CYANA calculation without TALOS constraints and then verify the TALOS predictions for consistency with the PHI/PSI angle distributions in the resulting structures. The validated TALOS constraints can then be used in subsequent structure calculations.
			*TALOS constraints may be used from the beginning to improve convergence of automated CYANA calculations in challenging cases, such as systems with sparse NOE, or homodimeric proteins.

	* The recommended conservative approach is to apply TALOS constraints for regular secondary structure elements (as predicted by CSI, for example) only, excluding the flanking residues.		<br>
	* If the NOE constraint network is quite dense, the best approach is to run an automated CYANA calculation without TALOS constrains and then verify the TALOS predictions for consistency with the PHI/PSI angle distributions in the resulting structures. The validated TALOS constraints can then be used in subsequent structure calculations.
	* TALOS constraints may be used from the beginning to improve convergence of automated CYANA calculations in challenging cases, such as systems with sparse NOE, or homodimeric proteins.

	<br>

	== '''Using TALOS and TALOS+ at CABM''' ==		== '''Using TALOS and TALOS+ at CABM''' ==

Alex at 18:49, 3 February 2013

2013-02-03T18:49:59Z

← Older revision		Revision as of 18:49, 3 February 2013
Line 1:		Line 1:
	== '''Introduction''' ==		== '''Introduction''' ==

	TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>~~&amp;amp;amp;amp;amp;lt;~~pubmed~~&amp;amp;amp;amp;amp;gt;~~10212987~~&amp;amp;amp;amp;amp;lt;~~/pubmed~~&amp;amp;amp;amp;amp;gt;~~</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>~~&amp;amp;amp;amp;amp;lt;~~pubmed~~&amp;amp;amp;amp;amp;gt;~~19548092~~&amp;amp;amp;amp;amp;lt;~~/pubmed~~&amp;amp;amp;amp;amp;gt;~~</ref>.<br>		TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref><pubmed>10212987</pubmed></ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref><pubmed>19548092</pubmed></ref>.<br>

	For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].		For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].

Alex at 18:36, 3 February 2013

2013-02-03T18:36:09Z

← Older revision		Revision as of 18:36, 3 February 2013
Line 1:		Line 1:
	== '''Introduction''' ==		== '''Introduction''' ==

	TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&amp;amp;amp;amp;lt;pubmed&amp;amp;amp;amp;gt;10212987&amp;amp;amp;amp;lt;/pubmed&amp;amp;amp;amp;gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&amp;amp;amp;amp;lt;pubmed&amp;amp;amp;amp;gt;19548092&amp;amp;amp;amp;lt;/pubmed&amp;amp;amp;amp;gt;</ref>.<br>		TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&amp;amp;amp;amp;amp;lt;pubmed&amp;amp;amp;amp;amp;gt;10212987&amp;amp;amp;amp;amp;lt;/pubmed&amp;amp;amp;amp;amp;gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&amp;amp;amp;amp;amp;lt;pubmed&amp;amp;amp;amp;amp;gt;19548092&amp;amp;amp;amp;amp;lt;/pubmed&amp;amp;amp;amp;amp;gt;</ref>.<br>

	For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].		For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].
Line 7:		Line 7:
	<br>		<br>

	There is a '''web-based server''' available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br> This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.<br>		There is a '''web-based server''' available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br> This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.<br> <br>
	<br>

	== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==		== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==
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	#Create and init.cya in this directory as described in "[[NESG:CYANAInitFile\|Creating an init.cya file for CYANA 2.1]]" or copy a previously used file.		#Create and init.cya in this directory as described in "[[NESG:CYANAInitFile\|Creating an init.cya file for CYANA 2.1]]" or copy a previously used file.
	#Start CYANA and type: <pre>read prot XXXX.prot		#Start CYANA and type: <pre>read prot XXXX.prot
	~~taloslist XXXX~~
	</pre>		</pre>

			taloslist XXXX

	#This will create the TALOS input file <tt>XXXX.tab</tt>. In this file rename all "H" atoms to "HN".		#This will create the TALOS input file <tt>XXXX.tab</tt>. In this file rename all "H" atoms to "HN".
	#In a UNIX shell run <br>		#In a UNIX shell run <br>
	#:talos+ -in XXXX.tab		#:talos+ -in XXXX.tab
	#:This will create a file <tt>pred.tab</tt>, which includes an initial summary of the prediction results.		#:This will create a file <tt>pred.tab</tt>, which includes an initial summary of the prediction results.
	#In a UNIX shell run <br>		#In a UNIX shell run <br>
	#:rama+ -in XXXX.tab		#:rama+ -in XXXX.tab
	#:Here you can examine <tt>phi</tt> and <tt>psi</tt> distributions, choose database matches to be used in calculating predictions, and classify prediction results as <tt>Good</tt>, <tt>Ambiguous</tt> or <tt>Unclassified</tt> / <tt>New</tt>. See below for the guidelines for classifying prediction. Save your modifications in a new file, for example, <tt>talos.tab</tt>.		#:Here you can examine <tt>phi</tt> and <tt>psi</tt> distributions, choose database matches to be used in calculating predictions, and classify prediction results as <tt>Good</tt>, <tt>Ambiguous</tt> or <tt>Unclassified</tt> / <tt>New</tt>. See below for the guidelines for classifying prediction. Save your modifications in a new file, for example, <tt>talos.tab</tt>.
	#Start CYANA and type: <br>		#Start CYANA and type: <br>
	#:talosaco pred #or "talos.tab" -- use the appropriate filename		#:talosaco pred #or "talos.tab" -- use the appropriate filename
	#:write aco talos.aco		#:write aco talos.aco
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	<br>		<br>

	<br>		=== '''Recommendations for Using TALOS constraints in CYANA calculations''' ===


			* The recommended conservative approach is to apply TALOS constraints for regular secondary structure elements (as predicted by CSI, for example) only, excluding the flanking residues.
			* If the NOE constraint network is quite dense, the best approach is to run an automated CYANA calculation without TALOS constrains and then verify the TALOS predictions for consistency with the PHI/PSI angle distributions in the resulting structures. The validated TALOS constraints can then be used in subsequent structure calculations.
			* TALOS constraints may be used from the beginning to improve convergence of automated CYANA calculations in challenging cases, such as systems with sparse NOE, or homodimeric proteins.

			<br>

	== '''Using TALOS and TALOS+ at CABM''' ==		== '''Using TALOS and TALOS+ at CABM''' ==
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	<pre> perl talos2dyana_taloserrors.pl pred.tab [output.aco]		<pre> perl talos2dyana_taloserrors.pl pred.tab [output.aco]
	</pre>		</pre>
	<br>		<br>

	== '''References''' ==		== '''References''' ==

	<references />		<references />

TheresaRamelot at 16:31, 1 February 2013

2013-02-01T16:31:18Z

← Older revision		Revision as of 16:31, 1 February 2013
Line 14:		Line 14:
	#Create a subdirectory (for example, <tt>structure/cyana21/talos</tt>) and copy the latest sequence and atom list files there. It is convenient to have them named <tt>XXXX.seq</tt> and <tt>XXXX.prot</tt>, where <tt>XXXX</tt> is an NESG target ID or other protein name. When using CARA, export the chemical shifts as an atom list file in this directory.		#Create a subdirectory (for example, <tt>structure/cyana21/talos</tt>) and copy the latest sequence and atom list files there. It is convenient to have them named <tt>XXXX.seq</tt> and <tt>XXXX.prot</tt>, where <tt>XXXX</tt> is an NESG target ID or other protein name. When using CARA, export the chemical shifts as an atom list file in this directory.
	#Create and init.cya in this directory as described in "[[NESG:CYANAInitFile\|Creating an init.cya file for CYANA 2.1]]" or copy a previously used file.		#Create and init.cya in this directory as described in "[[NESG:CYANAInitFile\|Creating an init.cya file for CYANA 2.1]]" or copy a previously used file.
	#Start CYANA and type:		#Start CYANA and type: <pre>read prot XXXX.prot
	#:<pre>		taloslist XXXX
	#:read prot XXXX.prot		</pre>
	#:taloslist XXXX
	#:</pre>		#This will create the TALOS input file <tt>XXXX.tab</tt>. In this file rename all "H" atoms to "HN".
	#This will create the TALOS input file <tt>XXXX.tab</tt>. In this file rename all "H" atoms to "HN".		#In a UNIX shell run <br>
	#In a UNIX shell run		#:talos+ -in XXXX.tab
	#:<~~pre~~>		#:This will create a file <tt>pred.tab</tt>, which includes an initial summary of the prediction results.
	#:talos+ -in XXXX.tab		#In a UNIX shell run <br>
	#:~~</pre>~~This will create a file <tt>pred.tab</tt>, which includes an initial summary of the prediction results.		#:rama+ -in XXXX.tab
	#In a UNIX shell run		#:Here you can examine <tt>phi</tt> and <tt>psi</tt> distributions, choose database matches to be used in calculating predictions, and classify prediction results as <tt>Good</tt>, <tt>Ambiguous</tt> or <tt>Unclassified</tt> / <tt>New</tt>. See below for the guidelines for classifying prediction. Save your modifications in a new file, for example, <tt>talos.tab</tt>.
	#:<~~pre~~>		#Start CYANA and type: <br>
	#:rama+ -in XXXX.tab		#:talosaco pred #or "talos.tab" -- use the appropriate filename
	#:~~</pre>~~Here you can examine <tt>phi</tt> and <tt>psi</tt> distributions, choose database matches to be used in calculating predictions, and classify prediction results as <tt>Good</tt>, <tt>Ambiguous</tt> or <tt>Unclassified</tt> / <tt>New</tt>. See below for the guidelines for classifying prediction. Save your modifications in a new file, for example, <tt>talos.tab</tt>.		#:write aco talos.aco
	#Start CYANA and type:		#:<br>
	#:<~~pre~~>
	#:talosaco pred #or "talos.tab" -- use the appropriate filename
	#:write aco talos.aco
	#:<~~/pre~~>

	=== '''talosaco.cya macro''' ===		=== '''talosaco.cya macro''' ===
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	See also the <tt>~/demo/details/TalosAngleRestraints.cya</tt> example script in your local CYANA 2.1 installation.		See also the <tt>~/demo/details/TalosAngleRestraints.cya</tt> example script in your local CYANA 2.1 installation.

	<br>		<br>

	=== '''Interactive Refinement of TALOS Predictions''' ===		=== '''Interactive Refinement of TALOS Predictions''' ===
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	\|}		\|}

			<br>

	<br>		<br>

TheresaRamelot at 15:39, 31 January 2013

2013-01-31T15:39:02Z

← Older revision		Revision as of 15:39, 31 January 2013
Line 1:		Line 1:
	== '''Introduction''' ==		== '''Introduction''' ==

	TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&amp;amp;amp;lt;pubmed&amp;amp;amp;gt;10212987&amp;amp;amp;lt;/pubmed&amp;amp;amp;gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&amp;amp;amp;lt;pubmed&amp;amp;amp;gt;19548092&amp;amp;amp;lt;/pubmed&amp;amp;amp;gt;</ref>.<br>		TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&amp;amp;amp;amp;lt;pubmed&amp;amp;amp;amp;gt;10212987&amp;amp;amp;amp;lt;/pubmed&amp;amp;amp;amp;gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&amp;amp;amp;amp;lt;pubmed&amp;amp;amp;amp;gt;19548092&amp;amp;amp;amp;lt;/pubmed&amp;amp;amp;amp;gt;</ref>.<br>

	For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].		For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].
Line 8:		Line 8:

	There is a '''web-based server''' available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br> This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.<br>		There is a '''web-based server''' available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br> This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.<br>
			<br>

	== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==		== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==

TheresaRamelot at 15:38, 31 January 2013

2013-01-31T15:38:04Z

← Older revision		Revision as of 15:38, 31 January 2013
Line 1:		Line 1:
	== '''Introduction''' ==		== '''Introduction''' ==

	TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&amp;amp;lt;pubmed&amp;amp;gt;10212987&amp;amp;lt;/pubmed&amp;amp;gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&amp;amp;lt;pubmed&amp;amp;gt;19548092&amp;amp;lt;/pubmed&amp;amp;gt;</ref>.<br>		TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&amp;amp;amp;lt;pubmed&amp;amp;amp;gt;10212987&amp;amp;amp;lt;/pubmed&amp;amp;amp;gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&amp;amp;amp;lt;pubmed&amp;amp;amp;gt;19548092&amp;amp;amp;lt;/pubmed&amp;amp;amp;gt;</ref>.<br>

	For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].		For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].
Line 7:		Line 7:
	<br>		<br>

	There is a web based server available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br> This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.<br>		There is a '''web-based server''' available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br> This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.<br>

	== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==		== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==

TheresaRamelot at 15:37, 31 January 2013

2013-01-31T15:37:23Z

← Older revision		Revision as of 15:37, 31 January 2013
Line 1:		Line 1:
	== '''Introduction''' ==		== '''Introduction''' ==

	TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&amp;lt;pubmed&amp;gt;10212987&amp;lt;/pubmed&amp;gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&amp;lt;pubmed&amp;gt;19548092&amp;lt;/pubmed&amp;gt;</ref>.<br>		TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&amp;amp;lt;pubmed&amp;amp;gt;10212987&amp;amp;lt;/pubmed&amp;amp;gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&amp;amp;lt;pubmed&amp;amp;gt;19548092&amp;amp;lt;/pubmed&amp;amp;gt;</ref>.<br>

	For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].		For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].
Line 7:		Line 7:
	<br>		<br>

	There is a web based server available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br> This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.		There is a web based server available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br> This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.<br>

	== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==		== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==

TheresaRamelot at 15:36, 31 January 2013

2013-01-31T15:36:12Z

← Older revision		Revision as of 15:36, 31 January 2013
Line 1:		Line 1:
	== '''Introduction''' ==		== '''Introduction''' ==

	TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&lt;pubmed&gt;10212987&lt;/pubmed&gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&lt;pubmed&gt;19548092&lt;/pubmed&gt;</ref>.<br>		TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&amp;lt;pubmed&amp;gt;10212987&amp;lt;/pubmed&amp;gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&amp;lt;pubmed&amp;gt;19548092&amp;lt;/pubmed&amp;gt;</ref>.<br>

	For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].		For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].
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	<br>		<br>

	There is a web based server available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br>		There is a web based server available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br> This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.
	This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.

	== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==		== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==

TheresaRamelot at 15:35, 31 January 2013

2013-01-31T15:35:19Z

← Older revision		Revision as of 15:35, 31 January 2013
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	== '''Introduction''' ==		== '''Introduction''' ==

	TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref><pubmed>10212987</pubmed></ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref><pubmed>19548092</pubmed></ref>.<br>		TALOS (Torsion Angle Likelihood Obtained from Shift and sequence similarity) is a database system for empirical prediction of <tt>phi</tt> and <tt>psi</tt> backbone torsion angles from five kinds (HA, CA, CB, CO, N) of chemical shifts for a given protein sequence <ref>&lt;pubmed&gt;10212987&lt;/pubmed&gt;</ref>. In 2009, the Bax laboratory released a new and improved version of the program called TALOS+<ref>&lt;pubmed&gt;19548092&lt;/pubmed&gt;</ref>.<br>

	For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].		For detailed information please check the [http://spin.niddk.nih.gov/NMRPipe/talos/ TALOS] and [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web sites.  For installation questions and other support, you can also e-mail [mailto:shenyang@niddk.nih.gov Yang Shen].

			<br>

			There is a web based server available from Ad Bax's [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html TALOS+] web site: [http://spin.niddk.nih.gov/bax/software/TALOS+/index.html http://spin.niddk.nih.gov/bax/software/TALOS+/index.html]<br>
			This is probably the best thing to use since you can be sure that the Talos+ chemical shift database is the most recent.

	== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==		== '''Generating TALOS dihedral angle constraints with CYANA (UB)''' ==