4csv - Revision history

OCA at 12:15, 20 December 2023

2023-12-20T12:15:59Z

← Older revision		Revision as of 12:15, 20 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4csv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CSV FirstGlance]. <br>		<table><tr><td colspan='2'>[[4csv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CSV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=STI:4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE'>STI</scene></td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.05Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=STI:4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE'>STI</scene></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4csv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csv OCA], [https://pdbe.org/4csv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4csv RCSB], [https://www.ebi.ac.uk/pdbsum/4csv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4csv ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4csv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csv OCA], [https://pdbe.org/4csv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4csv RCSB], [https://www.ebi.ac.uk/pdbsum/4csv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4csv ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:31, 14 September 2022

2022-09-14T07:31:42Z

← Older revision		Revision as of 07:31, 14 September 2022
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	<StructureSection load='4csv' size='340' side='right'caption='[[4csv]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='4csv' size='340' side='right'caption='[[4csv]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4csv]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Synthetic_construct_sequences~~ Synthetic construct ~~sequences~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4CSV FirstGlance]. <br>		<table><tr><td colspan='2'>[[4csv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CSV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=STI:4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE'>STI</scene~~></td></tr>~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=STI:4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE'>STI</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_protein-tyrosine_kinase Non-specific protein-tyrosine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.10.2 2.7.10.2] </span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4csv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csv OCA], [https://pdbe.org/4csv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4csv RCSB], [https://www.ebi.ac.uk/pdbsum/4csv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4csv ProSAT]</span></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4csv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csv OCA], [~~http~~://pdbe.org/4csv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4csv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4csv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4csv ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	~~[[Category: Non-specific protein-tyrosine kinase]]~~		[[Category: Synthetic construct]]
	[[Category: Synthetic construct ~~sequences~~]]		[[Category: Agafonov RV]]
	[[Category: Agafonov~~, R V~~]]		[[Category: Cruz L]]
	[[Category: Cruz, L]]		[[Category: Hoemberger MS]]
	[[Category: Hoemberger~~, M S~~]]		[[Category: Kern D]]
	[[Category: Kern, D]]		[[Category: Kutter S]]
	[[Category: Kutter, S]]		[[Category: Wilson C]]
	[[Category: Wilson, C]]		[[Category: Zorba A]]
	[[Category: Zorba, A]]
	~~[[Category: Dfg]]~~
	~~[[Category: Transferase~~]]

OCA at 09:28, 20 March 2019

2019-03-20T09:28:30Z

← Older revision		Revision as of 09:28, 20 March 2019
Line 1:		Line 1:

	==Tyrosine kinase AS - a common ancestor of Src and Abl bound to Gleevec==		==Tyrosine kinase AS - a common ancestor of Src and Abl bound to Gleevec==
	<StructureSection load='4csv' size='340' side='right' caption='[[4csv]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='4csv' size='340' side='right'caption='[[4csv]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4csv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSV FirstGlance]. <br>		<table><tr><td colspan='2'>[[4csv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Synthetic_construct_sequences Synthetic construct sequences]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=STI:4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE'>STI</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=STI:4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE'>STI</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_protein-tyrosine_kinase Non-specific protein-tyrosine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.10.2 2.7.10.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_protein-tyrosine_kinase Non-specific protein-tyrosine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.10.2 2.7.10.2] </span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Non-specific protein-tyrosine kinase]]		[[Category: Non-specific protein-tyrosine kinase]]
			[[Category: Synthetic construct sequences]]
	[[Category: Agafonov, R V]]		[[Category: Agafonov, R V]]
	[[Category: Cruz, L]]		[[Category: Cruz, L]]

OCA at 02:39, 11 December 2016

2016-12-11T02:39:36Z

← Older revision		Revision as of 02:39, 11 December 2016
Line 1:		Line 1:

	==Tyrosine kinase AS - a common ancestor of Src and Abl bound to Gleevec==		==Tyrosine kinase AS - a common ancestor of Src and Abl bound to Gleevec==
	<StructureSection load='4csv' size='340' side='right' caption='[[4csv]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='4csv' size='340' side='right' caption='[[4csv]], [[Resolution\|resolution]] 2.05Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=STI:4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE'>STI</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=STI:4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE'>STI</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_protein-tyrosine_kinase Non-specific protein-tyrosine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.10.2 2.7.10.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_protein-tyrosine_kinase Non-specific protein-tyrosine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.10.2 2.7.10.2] </span></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4csv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csv RCSB], [http://www.ebi.ac.uk/pdbsum/4csv PDBsum]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4csv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csv OCA], [http://pdbe.org/4csv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4csv RCSB], [http://www.ebi.ac.uk/pdbsum/4csv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4csv ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
			<div class="pdbe-citations 4csv" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:23, 4 March 2015

2015-03-04T11:23:04Z

← Older revision		Revision as of 11:23, 4 March 2015
Line 1:		Line 1:
	'''~~Unreleased~~ structure'''		==Tyrosine kinase AS - a common ancestor of Src and Abl bound to Gleevec==
			<StructureSection load='4csv' size='340' side='right' caption='[[4csv]], [[Resolution\|resolution]] 2.05Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4csv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CSV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CSV FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=STI:4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE'>STI</scene></td></tr>
			<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_protein-tyrosine_kinase Non-specific protein-tyrosine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.10.2 2.7.10.2] </span></td></tr>
			<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4csv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4csv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4csv RCSB], [http://www.ebi.ac.uk/pdbsum/4csv PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Macromolecular function is rooted in energy landscapes, where sequence determines not a single structure but an ensemble of conformations. Hence, evolution modifies a protein's function by altering its energy landscape. Here, we recreate the evolutionary pathway between two modern human oncogenes, Src and Abl, by reconstructing their common ancestors. Our evolutionary reconstruction combined with x-ray structures of the common ancestor and pre-steady-state kinetics reveals a detailed atomistic mechanism for selectivity of the successful cancer drug Gleevec. Gleevec affinity is gained during the evolutionary trajectory toward Abl and lost toward Src, primarily by shifting an induced-fit equilibrium that is also disrupted in the clinical T315I resistance mutation. This work reveals the mechanism of Gleevec specificity while offering insights into how energy landscapes evolve.

	~~The entry 4csv is ON HOLD~~		Kinase dynamics. Using ancient protein kinases to unravel a modern cancer drug's mechanism.,Wilson C, Agafonov RV, Hoemberger M, Kutter S, Zorba A, Halpin J, Buosi V, Otten R, Waterman D, Theobald DL, Kern D Science. 2015 Feb 20;347(6224):882-6. doi: 10.1126/science.aaa1823. PMID:25700521<ref>PMID:25700521</ref>

	~~Authors: Kutter~~, S.~~, Wilson, C~~.~~, Cruz, L.,~~ Agafonov, R.V., Hoemberger, M.S~~., Zorba, A., Kern, D.~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~Description: Tyrosine kinase AS -a common ancestor of Src and Abl bound to Gleevec~~		== References ==
	[[Category: ~~Unreleased Structures~~]]		<references/>
			__TOC__
			</StructureSection>
			[[Category: Non-specific protein-tyrosine kinase]]
			[[Category: Agafonov, R V]]
			[[Category: Cruz, L]]
			[[Category: Hoemberger, M S]]
			[[Category: Kern, D]]
	[[Category: Kutter, S]]		[[Category: Kutter, S]]
	[[Category: Wilson, C]]		[[Category: Wilson, C]]
	~~[[Category: Kern, D]]~~
	~~[[Category: Agafonov, R.V]]~~
	[[Category: Zorba, A]]		[[Category: Zorba, A]]
	[[Category: ~~Hoemberger, M.S~~]]		[[Category: Dfg]]
	[[Category: ~~Cruz, L~~]]		[[Category: Transferase]]

OCA at 13:32, 24 December 2014

2014-12-24T13:32:20Z

← Older revision		Revision as of 13:32, 24 December 2014
Line 6:		Line 6:

	Description: Tyrosine kinase AS -a common ancestor of Src and Abl bound to Gleevec		Description: Tyrosine kinase AS -a common ancestor of Src and Abl bound to Gleevec
			[[Category: Unreleased Structures]]
			[[Category: Kutter, S]]
			[[Category: Wilson, C]]
			[[Category: Kern, D]]
			[[Category: Agafonov, R.V]]
			[[Category: Zorba, A]]
			[[Category: Hoemberger, M.S]]
			[[Category: Cruz, L]]

OCA: Protected "4csv" [edit=sysop:move=sysop]

2014-03-19T06:51:46Z

Protected "4csv" [edit=sysop:move=sysop]

← Older revision	Revision as of 06:51, 19 March 2014
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4csv is ON HOLD Authors: Kutter, S., Wilson, C., Cruz, L., Agafonov, R.V., Hoemberger, M.S., Zorba, A., Kern, D. Description: Tyrosine kinase AS -a...

2014-03-19T06:51:44Z

New page: '''Unreleased structure''' The entry 4csv is ON HOLD Authors: Kutter, S., Wilson, C., Cruz, L., Agafonov, R.V., Hoemberger, M.S., Zorba, A., Kern, D. Description: Tyrosine kinase AS -a...

New page

'''Unreleased structure'''

The entry 4csv is ON HOLD

Authors: Kutter, S., Wilson, C., Cruz, L., Agafonov, R.V., Hoemberger, M.S., Zorba, A., Kern, D.

Description: Tyrosine kinase AS -a common ancestor of Src and Abl bound to Gleevec