4gkq - Revision history

OCA at 11:32, 1 March 2024

2024-03-01T11:32:07Z

←Older revision		Revision as of 11:32, 1 March 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4gkq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Candida_glabrata_CBS_138 Candida glabrata CBS 138]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4GKQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[4gkq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Candida_glabrata_CBS_138 Candida glabrata CBS 138]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4GKQ FirstGlance]. <br>
-	</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=4gkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gkq OCA], [https://pdbe.org/4gkq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4gkq RCSB], [https://www.ebi.ac.uk/pdbsum/4gkq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4gkq ProSAT]</span></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]] 2.99Å</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=4gkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gkq OCA], [https://pdbe.org/4gkq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4gkq RCSB], [https://www.ebi.ac.uk/pdbsum/4gkq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4gkq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/Q6FSG8_CANGA Q6FSG8_CANGA]		[https://www.uniprot.org/uniprot/Q6FSG8_CANGA Q6FSG8_CANGA]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	It is widely accepted that movement of kinesin motor proteins is accomplished by coupling ATP binding, hydrolysis, and product release to conformational changes in the microtubule-binding and force-generating elements of their motor domain. Therefore, understanding how the Saccharomyces cerevisiae proteins Cik1 and Vik1 are able to function as direct participants in movement of Kar3Cik1 and Kar3Vik1 kinesin complexes presents an interesting challenge given that their motor homology domain (MHD) cannot bind ATP. Our crystal structures of the Vik1 ortholog from Candida glabrata may provide insight into this mechanism by showing that its neck and neck mimic-like element can adopt several different conformations reminiscent of those observed in catalytic kinesins. We found that when the neck is alpha-helical and interacting with the MHD core, the C-terminus of CgVik1 docks onto the central beta-sheet similarly to the ATP-bound form of Ncd. Alternatively, when neck-core interactions are broken, the C-terminus is disordered. Mutations designed to impair neck rotation, or some of the neck-MHD interactions, decreased microtubule gliding velocity and steady-state ATPase rate of CgKar3Vik1 complexes significantly. These results strongly suggest that neck rotation and neck mimic docking in Vik1 and Cik1 may be a structural mechanism for communication with Kar3.
-
-	Neck rotation and neck mimic docking in the non-catalytic Kar3-associated protein Vik1.,Duan D, Jia Z, Joshi M, Brunton J, Chan M, Drew D, Davis D, Allingham JS J Biol Chem. 2012 Oct 7. PMID:23043140<ref>PMID:23043140</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4gkq" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:02, 26 October 2022

2022-10-26T07:02:27Z

←Older revision		Revision as of 07:02, 26 October 2022
Line 1:		Line 1:

	==Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata==		==Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata==
-	<StructureSection load='4gkq' size='340' side='right' caption='[[4gkq]], [[Resolution\|resolution]] 2.99Å' scene=''>	+	<StructureSection load='4gkq' size='340' side='right'caption='[[4gkq]], [[Resolution\|resolution]] 2.99Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4gkq]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Canga Canga~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4GKQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4gkq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Candida_glabrata_CBS_138 Candida glabrata CBS 138]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4GKQ FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4gkp\|4gkp]], [[4gkr\|4gkr]]</td></tr>~~	+	</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=4gkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gkq OCA], [https://pdbe.org/4gkq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4gkq RCSB], [https://www.ebi.ac.uk/pdbsum/4gkq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4gkq ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAGL0H00638g ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=284593 CANGA])</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=4gkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gkq OCA], [~~http~~://pdbe.org/4gkq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4gkq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4gkq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4gkq ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q6FSG8_CANGA Q6FSG8_CANGA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Canga~~]]	+	[[Category: Large Structures]]
-	[[Category: Allingham~~, J S~~]]	+	[[Category: Allingham JS]]
-	[[Category: Duan, D]]	+	[[Category: Duan D]]
-	~~[[Category: Kar3]]~~	+
-	~~[[Category: Kinesin motor domain-like fold]]~~	+
-	~~[[Category: Kinesin-associated protein]]~~	+
-	~~[[Category: Microtubule binding protein]]~~	+
-	~~[[Category: Structural protein~~]]	+

OCA at 10:13, 11 August 2016

2016-08-11T10:13:05Z

←Older revision		Revision as of 10:13, 11 August 2016
Line 1:		Line 1:
		+
	==Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata==		==Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata==
	<StructureSection load='4gkq' size='340' side='right' caption='[[4gkq]], [[Resolution\|resolution]] 2.99Å' scene=''>		<StructureSection load='4gkq' size='340' side='right' caption='[[4gkq]], [[Resolution\|resolution]] 2.99Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4gkq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Candida_glabrata_cbs_138 Candida glabrata cbs 138~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GKQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4gkq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Canga Canga]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GKQ FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4gkp\|4gkp]], [[4gkr\|4gkr]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4gkp\|4gkp]], [[4gkr\|4gkr]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAGL0H00638g ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=284593 ~~Candida glabrata CBS 138~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAGL0H00638g ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=284593 CANGA])</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=4gkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gkq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4gkq RCSB], [http://www.ebi.ac.uk/pdbsum/4gkq 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=4gkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gkq OCA], [http://pdbe.org/4gkq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4gkq RCSB], [http://www.ebi.ac.uk/pdbsum/4gkq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4gkq 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 4gkq" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Candida glabrata cbs 138~~]]	+	[[Category: Canga]]
	[[Category: Allingham, J S]]		[[Category: Allingham, J S]]
	[[Category: Duan, D]]		[[Category: Duan, D]]

OCA at 12:46, 5 January 2015

2015-01-05T12:46:24Z

←Older revision		Revision as of 12:46, 5 January 2015
Line 1:		Line 1:
-	[[~~Image:~~4gkq.~~png~~\|~~left~~\|~~200px~~]]	+	==Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata==
		+	<StructureSection load='4gkq' size='340' side='right' caption='[[4gkq]], [[Resolution\|resolution]] 2.99Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4gkq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Candida_glabrata_cbs_138 Candida glabrata cbs 138]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GKQ FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4gkp\|4gkp]], [[4gkr\|4gkr]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAGL0H00638g ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=284593 Candida glabrata CBS 138])</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=4gkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gkq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4gkq RCSB], [http://www.ebi.ac.uk/pdbsum/4gkq PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	It is widely accepted that movement of kinesin motor proteins is accomplished by coupling ATP binding, hydrolysis, and product release to conformational changes in the microtubule-binding and force-generating elements of their motor domain. Therefore, understanding how the Saccharomyces cerevisiae proteins Cik1 and Vik1 are able to function as direct participants in movement of Kar3Cik1 and Kar3Vik1 kinesin complexes presents an interesting challenge given that their motor homology domain (MHD) cannot bind ATP. Our crystal structures of the Vik1 ortholog from Candida glabrata may provide insight into this mechanism by showing that its neck and neck mimic-like element can adopt several different conformations reminiscent of those observed in catalytic kinesins. We found that when the neck is alpha-helical and interacting with the MHD core, the C-terminus of CgVik1 docks onto the central beta-sheet similarly to the ATP-bound form of Ncd. Alternatively, when neck-core interactions are broken, the C-terminus is disordered. Mutations designed to impair neck rotation, or some of the neck-MHD interactions, decreased microtubule gliding velocity and steady-state ATPase rate of CgKar3Vik1 complexes significantly. These results strongly suggest that neck rotation and neck mimic docking in Vik1 and Cik1 may be a structural mechanism for communication with Kar3.

-	~~{{STRUCTURE_4gkq\| PDB=4gkq \| SCENE= }}~~	+	Neck rotation and neck mimic docking in the non-catalytic Kar3-associated protein Vik1.,Duan D, Jia Z, Joshi M, Brunton J, Chan M, Drew D, Davis D, Allingham JS J Biol Chem. 2012 Oct 7. PMID:23043140<ref>PMID:23043140</ref>

-	~~===Structure~~ of the ~~neck and C-terminal motor homology domain~~ of ~~ViK1 from Candida glabrata===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_23043140}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[4gkq]] is a 2 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Candida_glabrata_cbs_138 Candida glabrata cbs 138]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA].~~	+	</StructureSection>
	[[Category: Candida glabrata cbs 138]]		[[Category: Candida glabrata cbs 138]]
-	[[Category: Allingham, J S.]]	+	[[Category: Allingham, J S]]
-	[[Category: Duan, D.]]	+	[[Category: Duan, D]]
	[[Category: Kar3]]		[[Category: Kar3]]
	[[Category: Kinesin motor domain-like fold]]		[[Category: Kinesin motor domain-like fold]]

OCA at 06:09, 17 October 2012

2012-10-17T06:09:27Z

←Older revision		Revision as of 06:09, 17 October 2012
Line 1:		Line 1:
-	[[Image:4gkq.~~jpg~~\|left\|200px]]	+	[[Image:4gkq.png\|left\|200px]]

	{{STRUCTURE_4gkq\| PDB=4gkq \| SCENE= }}		{{STRUCTURE_4gkq\| PDB=4gkq \| SCENE= }}
Line 5:		Line 5:
	===Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata===		===Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata===

		+	{{ABSTRACT_PUBMED_23043140}}

	==About this Structure==		==About this Structure==
-	[[4gkq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Candida_glabrata~~ Candida glabrata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA].	+	[[4gkq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Candida_glabrata_cbs_138 Candida glabrata cbs 138]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA].
-	[[Category: Candida glabrata]]	+	[[Category: Candida glabrata cbs 138]]
	[[Category: Allingham, J S.]]		[[Category: Allingham, J S.]]
	[[Category: Duan, D.]]		[[Category: Duan, D.]]

OCA at 06:28, 3 October 2012

2012-10-03T06:28:09Z

←Older revision		Revision as of 06:28, 3 October 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4gkq.jpg\|left\|200px]]

-	~~The entry~~ 4gkq ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_4gkq\| PDB=4gkq \| SCENE= }}

-	~~Authors: Duan, D., Allingham, J.S.~~	+	===Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata===

-	~~Description:~~ Structure ~~of the neck and C-terminal motor homology domain of ViK1~~ from Candida glabrata	+
		+	==About this Structure==
		+	[[4gkq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Candida_glabrata Candida glabrata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKQ OCA].
		+	[[Category: Candida glabrata]]
		+	[[Category: Allingham, J S.]]
		+	[[Category: Duan, D.]]
		+	[[Category: Kar3]]
		+	[[Category: Kinesin motor domain-like fold]]
		+	[[Category: Kinesin-associated protein]]
		+	[[Category: Microtubule binding protein]]
		+	[[Category: Structural protein]]

OCA at 04:54, 5 September 2012

2012-09-05T04:54:09Z

←Older revision		Revision as of 04:54, 5 September 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4gkq is ON HOLD	+	The entry 4gkq is ON HOLD until Paper Publication

-	Authors: Duan, D., Allingham, J. S.	+	Authors: Duan, D., Allingham, J.S.

	Description: Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata		Description: Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata

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

2012-08-22T05:36:05Z

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

←Older revision

Revision as of 05:36, 22 August 2012

OCA: New page: '''Unreleased structure''' The entry 4gkq is ON HOLD Authors: Duan, D., Allingham, J. S. Description: Structure of the neck and C-terminal motor homology domain of ViK1 from Candida gl...

2012-08-22T05:36:04Z

New page: '''Unreleased structure''' The entry 4gkq is ON HOLD Authors: Duan, D., Allingham, J. S. Description: Structure of the neck and C-terminal motor homology domain of ViK1 from Candida gl...

New page

'''Unreleased structure'''

The entry 4gkq is ON HOLD

Authors: Duan, D., Allingham, J. S.

Description: Structure of the neck and C-terminal motor homology domain of ViK1 from Candida glabrata