6k9v - Revision history

OCA at 10:28, 22 November 2023

OCA — Wed, 22 Nov 2023 10:28:29 GMT

←Older revision		Revision as of 10:28, 22 November 2023
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	<StructureSection load='6k9v' size='340' side='right'caption='[[6k9v]], [[Resolution\|resolution]] 2.54Å' scene=''>		<StructureSection load='6k9v' size='340' side='right'caption='[[6k9v]], [[Resolution\|resolution]] 2.54Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6k9v]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bos_taurus Bos taurus], [~~http~~://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~] and [~~http~~://en.wikipedia.org/wiki/~~Chick Chick~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K9V OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6K9V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k9v]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus], [https://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus] and [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K9V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6K9V FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=D3L:(5-methoxy-1H-indol-2-yl)-phenyl-methanone'>D3L</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.543Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Stmn4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat]), TTL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9031 CHICK])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=D3L:(5-methoxy-1H-indol-2-yl)-phenyl-methanone'>D3L</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=6k9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k9v OCA], [~~http~~://pdbe.org/6k9v PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6k9v RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6k9v PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6k9v 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=6k9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k9v OCA], [https://pdbe.org/6k9v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6k9v RCSB], [https://www.ebi.ac.uk/pdbsum/6k9v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6k9v ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/TBA1B_BOVIN TBA1B_BOVIN]] Tubulin is the major constituent of microtubules. It binds two moles of GTP, one at an exchangeable site on the beta chain and one at a non-exchangeable site on the alpha chain. [[http://www.uniprot.org/uniprot/STMN4_RAT STMN4_RAT]] Exhibits microtubule-destabilizing activity.<ref>PMID:15039434</ref> <ref>PMID:12111843</ref> <ref>PMID:15014504</ref> [[http://www.uniprot.org/uniprot/TBB2B_BOVIN TBB2B_BOVIN]] Tubulin is the major constituent of microtubules. It binds two moles of GTP, one at an exchangeable site on the beta chain and one at a non-exchangeable site on the alpha chain ~~(By similarity)~~.	+	[https://www.uniprot.org/uniprot/TBA1B_BOVIN TBA1B_BOVIN] Tubulin is the major constituent of microtubules. It binds two moles of GTP, one at an exchangeable site on the beta chain and one at a non-exchangeable site on the alpha chain.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6k9v" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6k9v" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Stathmin-4 3D structures\|Stathmin-4 3D structures]]
		+	*[[Tubulin 3D Structures\|Tubulin 3D Structures]]
		+	*[[Tubulin tyrosine ligase\|Tubulin tyrosine ligase]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
-	[[Category: ~~Buffalo rat]]~~	+	[[Category: Gallus gallus]]
-	~~[[Category: Chick~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Chen, Q~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: ~~Yu, Y~~]]	+	[[Category: Chen Q]]
-	[[Category: ~~Cell cycle]]~~	+	[[Category: Yu Y]]
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Inhibitor]]~~	+
-	~~[[Category: Structural protein]]~~	+
-	~~[[Category: Tubulin~~]]	+

OCA at 16:35, 22 January 2020

OCA — Wed, 22 Jan 2020 16:35:37 GMT

←Older revision		Revision as of 16:35, 22 January 2020
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	<StructureSection load='6k9v' size='340' side='right'caption='[[6k9v]], [[Resolution\|resolution]] 2.54Å' scene=''>		<StructureSection load='6k9v' size='340' side='right'caption='[[6k9v]], [[Resolution\|resolution]] 2.54Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6k9v]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/~~Bos_taurus Bos taurus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6K9V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k9v]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus], [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat] and [http://en.wikipedia.org/wiki/Chick Chick]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6K9V FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=D3L:(5-methoxy-1H-indol-2-yl)-phenyl-methanone'>D3L</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=D3L:(5-methoxy-1H-indol-2-yl)-phenyl-methanone'>D3L</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Stmn4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat]), TTL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9031 CHICK])</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=6k9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k9v OCA], [http://pdbe.org/6k9v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k9v RCSB], [http://www.ebi.ac.uk/pdbsum/6k9v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k9v 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=6k9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k9v OCA], [http://pdbe.org/6k9v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k9v RCSB], [http://www.ebi.ac.uk/pdbsum/6k9v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k9v ProSAT]</span></td></tr>
	</table>		</table>
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	</StructureSection>		</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
		+	[[Category: Buffalo rat]]
		+	[[Category: Chick]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Chen, Q]]		[[Category: Chen, Q]]

OCA at 15:30, 28 August 2019

OCA — Wed, 28 Aug 2019 15:30:24 GMT

←Older revision		Revision as of 15:30, 28 August 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6k9v is ~~ON HOLD~~	+	==Crystal structure of tubulin in complex with inhibitor D64==
		+	<StructureSection load='6k9v' size='340' side='right'caption='[[6k9v]], [[Resolution\|resolution]] 2.54Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6k9v]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6K9V FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=D3L:(5-methoxy-1H-indol-2-yl)-phenyl-methanone'>D3L</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=6k9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k9v OCA], [http://pdbe.org/6k9v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k9v RCSB], [http://www.ebi.ac.uk/pdbsum/6k9v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k9v ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TBA1B_BOVIN TBA1B_BOVIN]] Tubulin is the major constituent of microtubules. It binds two moles of GTP, one at an exchangeable site on the beta chain and one at a non-exchangeable site on the alpha chain. [[http://www.uniprot.org/uniprot/STMN4_RAT STMN4_RAT]] Exhibits microtubule-destabilizing activity.<ref>PMID:15039434</ref> <ref>PMID:12111843</ref> <ref>PMID:15014504</ref> [[http://www.uniprot.org/uniprot/TBB2B_BOVIN TBB2B_BOVIN]] Tubulin is the major constituent of microtubules. It binds two moles of GTP, one at an exchangeable site on the beta chain and one at a non-exchangeable site on the alpha chain (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Microtubules are composed of alphabeta-tubulin heterodimers, and drugs that interfere with microtubule dynamics are used widely in cancer chemotherapy. Small synthetic molecules with an indole nucleus as a core structure have been identified as microtubule inhibitors and recognized as anticancer agents. However, structural information for the interactions between indole derivatives and tubulin is sparse. Here, we present the 2.55 A crystal structure of tubulin in complex with the indole derivative D64131. We compare the binding modes of D64131, colchicine, and five other indole derivatives to tubulin. These results reveal the interactions between the indole derivatives and tubulin, explain previous results of structure-activity-relationship (SAR) studies and, thus, provide insights into the development of new indole derivatives targeting the colchicine binding site.

-	~~Authors: Yu~~, Y., Chen, Q.	+	Structural insights into the design of indole derivatives as tubulin polymerization inhibitors.,Li Y, Yang J, Niu L, Hu D, Li H, Chen L, Yu Y, Chen Q FEBS Lett. 2019 Aug 1. doi: 10.1002/1873-3468.13566. PMID:31369682<ref>PMID:31369682</ref>

-	~~Description: Crystal structure~~ of ~~tubulin in complex with inhibitor D64~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Yu, Y~~]]	+	<div class="pdbe-citations 6k9v" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bos taurus]]
		+	[[Category: Large Structures]]
	[[Category: Chen, Q]]		[[Category: Chen, Q]]
		+	[[Category: Yu, Y]]
		+	[[Category: Cell cycle]]
		+	[[Category: Complex]]
		+	[[Category: Inhibitor]]
		+	[[Category: Structural protein]]
		+	[[Category: Tubulin]]

OCA: Protected "6k9v" [edit=sysop:move=sysop]

OCA — Wed, 26 Jun 2019 05:06:47 GMT

Protected "6k9v" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:06, 26 June 2019

OCA: New page: '''Unreleased structure''' The entry 6k9v is ON HOLD Authors: Yu, Y., Chen, Q. Description: Crystal structure of tubulin in complex with inhibitor D64 [[Category: Unreleased Structures...

OCA — Wed, 26 Jun 2019 05:06:46 GMT

New page: '''Unreleased structure''' The entry 6k9v is ON HOLD Authors: Yu, Y., Chen, Q. Description: Crystal structure of tubulin in complex with inhibitor D64 [[Category: Unreleased Structures...

New page

'''Unreleased structure'''

The entry 6k9v is ON HOLD

Authors: Yu, Y., Chen, Q.

Description: Crystal structure of tubulin in complex with inhibitor D64
[[Category: Unreleased Structures]]
[[Category: Yu, Y]]
[[Category: Chen, Q]]