6v88 - Revision history

OCA at 11:05, 14 June 2023

2023-06-14T11:05:24Z

←Older revision		Revision as of 11:05, 14 June 2023
Line 1:		Line 1:

	==Solution NMR structure of Dictyostelium discoideum Skp1A (truncated) dimer==		==Solution NMR structure of Dictyostelium discoideum Skp1A (truncated) dimer==
-	<StructureSection load='6v88' size='340' side='right'caption='[[6v88~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='6v88' size='340' side='right'caption='[[6v88]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6v88]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Dicdi Dicdi~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V88 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6V88 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6v88]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V88 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6V88 FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fpaA, fp21A, fpa1, fpa1A, skp1A, DDB_G0269230 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=44689 DICDI])</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=6v88 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v88 OCA], [https://pdbe.org/6v88 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6v88 RCSB], [https://www.ebi.ac.uk/pdbsum/6v88 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6v88 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=6v88 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v88 OCA], [https://pdbe.org/6v88 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6v88 RCSB], [https://www.ebi.ac.uk/pdbsum/6v88 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6v88 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/SKP1A_DICDI SKP1A_DICDI]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Dicdi~~]]	+	[[Category: Dictyostelium discoideum]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Eletsky, A]]	+	[[Category: Eletsky A]]
-	[[Category: Kim~~, H W~~]]	+	[[Category: Kim HW]]
-	[[Category: West~~, C M]]~~	+	[[Category: West CM]]
-	~~[[Category: Protein binding]]~~	+
-	~~[[Category: Ubiquitin ligase e3 scf complex skp1~~]]	+

OCA at 07:11, 16 March 2022

2022-03-16T07:11:33Z

←Older revision		Revision as of 07:11, 16 March 2022
Line 3:		Line 3:
	<StructureSection load='6v88' size='340' side='right'caption='[[6v88]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='6v88' size='340' side='right'caption='[[6v88]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6v88]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Dicdi Dicdi]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V88 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6V88 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6v88]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Dicdi Dicdi]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V88 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6V88 FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fpaA, fp21A, fpa1, fpa1A, skp1A, DDB_G0269230 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=44689 DICDI])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fpaA, fp21A, fpa1, fpa1A, skp1A, DDB_G0269230 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=44689 DICDI])</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6v88 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v88 OCA], [~~http~~://pdbe.org/6v88 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6v88 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6v88 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6v88 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=6v88 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v88 OCA], [https://pdbe.org/6v88 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6v88 RCSB], [https://www.ebi.ac.uk/pdbsum/6v88 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6v88 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:39, 6 May 2020

2020-05-06T06:39:44Z

←Older revision		Revision as of 06:39, 6 May 2020
Line 1:		Line 1:

	==Solution NMR structure of Dictyostelium discoideum Skp1A (truncated) dimer==		==Solution NMR structure of Dictyostelium discoideum Skp1A (truncated) dimer==
-	<StructureSection load='6v88' size='340' side='right'caption='[[6v88]]' scene=''>	+	<StructureSection load='6v88' size='340' side='right'caption='[[6v88]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V88 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6V88 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6v88]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Dicdi Dicdi]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V88 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6V88 FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6v88 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v88 OCA], [http://pdbe.org/6v88 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v88 RCSB], [http://www.ebi.ac.uk/pdbsum/6v88 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v88 ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fpaA, fp21A, fpa1, fpa1A, skp1A, DDB_G0269230 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=44689 DICDI])</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6v88 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v88 OCA], [http://pdbe.org/6v88 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v88 RCSB], [http://www.ebi.ac.uk/pdbsum/6v88 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v88 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Skp1 is an adapter that links F-box proteins to cullin-1 in the Skp1/cullin-1/F-box (SCF) protein family of E3 ubiquitin ligases that targets specific proteins for polyubiquitination and subsequent protein degradation. Skp1 from the amoebozoan Dictyostelium forms a stable homodimer in vitro with a Kd of 2.5 muM as determined by sedimentation velocity studies yet is monomeric in crystal complexes with F-box proteins. To investigate the molecular basis for the difference, we determined the solution NMR structure of a doubly truncated Skp1 homodimer (Skp1DeltaDelta). The solution structure of the Skp1DeltaDelta dimer reveals a 2-fold symmetry with an interface that buries approximately 750 A(2) of predominantly hydrophobic surface. The dimer interface overlaps with subsite 1 of the F-box interaction area, explaining why only the Skp1 monomer binds F-box proteins (FBPs). To confirm the model, Rosetta was used to predict amino acid substitutions that might disrupt the dimer interface, and the F97E substitution was chosen to potentially minimize interference with F-box interactions. A nearly full-length version of Skp1 with this substitution (Skp1DeltaF97E) behaved as a stable monomer at concentrations of </=500 muM and actively bound a model FBP, mammalian Fbs1, which suggests that the dimeric state is not required for Skp1 to carry out a basic biochemical function. Finally, Skp1DeltaF97E is expected to serve as a monomer model for high-resolution NMR studies previously hindered by dimerization.
		+
		+	Skp1 Dimerization Conceals Its F-Box Protein Binding Site.,Kim HW, Eletsky A, Gonzalez KJ, van der Wel H, Strauch EM, Prestegard JH, West CM Biochemistry. 2020 Apr 13. doi: 10.1021/acs.biochem.0c00094. PMID:32227851<ref>PMID:32227851</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6v88" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Dicdi]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Eletsky A]]	+	[[Category: Eletsky, A]]
-	[[Category: Kim HW]]	+	[[Category: Kim, H W]]
-	[[Category: West CM]]	+	[[Category: West, C M]]
		+	[[Category: Protein binding]]
		+	[[Category: Ubiquitin ligase e3 scf complex skp1]]

OCA at 07:01, 15 April 2020

2020-04-15T07:01:55Z

←Older revision		Revision as of 07:01, 15 April 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6v88 is ~~ON HOLD until Paper Publication~~	+	==Solution NMR structure of Dictyostelium discoideum Skp1A (truncated) dimer==
-		+	<StructureSection load='6v88' size='340' side='right'caption='[[6v88]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V88 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6V88 FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6v88 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v88 OCA], [http://pdbe.org/6v88 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v88 RCSB], [http://www.ebi.ac.uk/pdbsum/6v88 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v88 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Eletsky A]]
		+	[[Category: Kim HW]]
		+	[[Category: West CM]]

OCA at 02:39, 13 February 2020

2020-02-13T02:39:26Z

←Older revision		Revision as of 02:39, 13 February 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6v88 is ON HOLD	+	The entry 6v88 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6v88" [edit=sysop:move=sysop]

2019-12-18T06:05:47Z

Protected "6v88" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:05, 18 December 2019

OCA: New page: '''Unreleased structure''' The entry 6v88 is ON HOLD Authors: Description: Category: Unreleased Structures

2019-12-18T06:05:46Z

New page: '''Unreleased structure''' The entry 6v88 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6v88 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]