5tup - Revision history

OCA at 13:12, 4 October 2023

OCA — Wed, 04 Oct 2023 13:12:44 GMT

←Older revision		Revision as of 13:12, 4 October 2023
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	<StructureSection load='5tup' size='340' side='right'caption='[[5tup]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='5tup' size='340' side='right'caption='[[5tup]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tup]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TUP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5TUP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tup]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_fumigatus_Z5 Aspergillus fumigatus Z5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TUP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5TUP 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=5tup FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tup OCA], [~~http~~://pdbe.org/5tup PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5tup RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5tup PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5tup 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]] 2.602Å</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=5tup FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tup OCA], [https://pdbe.org/5tup PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5tup RCSB], [https://www.ebi.ac.uk/pdbsum/5tup PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5tup ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/A0A0J5SJF1_ASPFM A0A0J5SJF1_ASPFM]] This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.[RuleBase:RU000641]	+	[https://www.uniprot.org/uniprot/A0A0J5SJF1_ASPFM A0A0J5SJF1_ASPFM] This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.[RuleBase:RU000641]
	<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 5tup" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5tup" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Proliferating cell nuclear antigen 3D structures\|Proliferating cell nuclear antigen 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aspergillus fumigatus Z5]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bruning~~, J B~~]]	+	[[Category: Bruning JB]]
-	[[Category: Kroker~~, A J~~]]	+	[[Category: Kroker AJ]]
-	[[Category: Marshall~~, A C~~]]	+	[[Category: Marshall AC]]
-	[[Category: Rajapaksha, H]]	+	[[Category: Rajapaksha H]]
-	[[Category: Wegener~~, K L]]~~	+	[[Category: Wegener KL]]
-	~~[[Category: Dna binding protein]]~~	+
-	~~[[Category: Sliding clamp~~]]	+

OCA at 12:20, 23 September 2020

OCA — Wed, 23 Sep 2020 12:20:16 GMT

←Older revision		Revision as of 12:20, 23 September 2020
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	==X-ray Crystal Structure of the Aspergillus fumigatus Sliding Clamp==		==X-ray Crystal Structure of the Aspergillus fumigatus Sliding Clamp==
-	<StructureSection load='5tup' size='340' side='right' caption='[[5tup]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='5tup' size='340' side='right'caption='[[5tup]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tup]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TUP OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5TUP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tup]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TUP OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5TUP FirstGlance]. <br>
-	</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=5tup FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tup OCA], [http://pdbe.org/5tup PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tup RCSB], [http://www.ebi.ac.uk/pdbsum/5tup PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tup ProSAT]</span></td></tr>	+	</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=5tup FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tup OCA], [http://pdbe.org/5tup PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tup RCSB], [http://www.ebi.ac.uk/pdbsum/5tup PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tup ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Bruning, J B]]		[[Category: Bruning, J B]]
	[[Category: Kroker, A J]]		[[Category: Kroker, A J]]

OCA at 01:42, 11 March 2017

OCA — Sat, 11 Mar 2017 01:42:20 GMT

←Older revision		Revision as of 01:42, 11 March 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5tup is ~~ON HOLD until Paper~~ Publication	+	==X-ray Crystal Structure of the Aspergillus fumigatus Sliding Clamp==
		+	<StructureSection load='5tup' size='340' side='right' caption='[[5tup]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5tup]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TUP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TUP FirstGlance]. <br>
		+	</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=5tup FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tup OCA], [http://pdbe.org/5tup PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tup RCSB], [http://www.ebi.ac.uk/pdbsum/5tup PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tup ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/A0A0J5SJF1_ASPFM A0A0J5SJF1_ASPFM]] This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.[RuleBase:RU000641]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The fungal pathogen Aspergillus fumigatus has been implicated in a drastic increase in life-threatening infections over the past decade. However, compared to other microbial pathogens, little is known about the essential molecular processes of this organism. One such fundamental process is DNA replication. The protein responsible for ensuring processive DNA replication is PCNA (proliferating cell nuclear antigen, also known as the sliding clamp), which clamps the replicative polymerase to DNA. Here we present the first crystal structure of a sliding clamp from a pathogenic fungus (A. fumigatus), at 2.6A. Surprisingly, the structure bears more similarity to the human sliding clamp than other available fungal sliding clamps. Reflecting this, fluorescence polarization experiments demonstrated that AfumPCNA interacts with the PCNA-interacting protein (PIP-box) motif of human p21 with an affinity (Kd ) of 3.1 mum. Molecular dynamics simulations were carried out to better understand how AfumPCNA interacts with human p21. These simulations revealed that the PIP-box bound to AfuPCNA forms a secondary structure similar to that observed in the human complex, with a central 310 helix contacting the hydrophobic surface pocket of AfumPCNA as well as a beta-strand that forms an antiparallel sheet with the AfumPCNA surface. Differences in the 310 helix interaction with PCNA, attributed to residue Thr131 of AfumPCNA, and a less stable beta-strand formation, attributed to residues Gln123 and His125 of AfumPCNA, are likely causes of the over 10-fold lower affinity of the p21 PIP-box for AfumPCNA as compared to hPCNA. DATABASE: The atomic coordinates and structure factors for the Aspergillus fumigatus sliding clamp can be found in the RCSB Protein Data Bank (http://www.rcsb.org) under the accession code 5TUP.

-	~~Authors: Bruning, J.B~~., Marshall~~, A.C.~~, Kroker, ~~A.J., Wegener~~, K~~.L.~~, Rajapaksha, H.	+	Structure of the sliding clamp from the fungal pathogen Aspergillus fumigatus (AfumPCNA) and interactions with Human p21.,Marshall AC, Kroker AJ, Murray LA, Gronthos K, Rajapaksha H, Wegener KL, Bruning JB FEBS J. 2017 Feb 6. doi: 10.1111/febs.14035. PMID:28165677<ref>PMID:28165677</ref>

-	~~Description: X-ray Crystal Structure~~ of the ~~Aspergillus fumigatus Sliding Clamp~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Kroker, A.J]]	+	<div class="pdbe-citations 5tup" style="background-color:#fffaf0;"></div>
-	[[Category: Marshall, A.C]]	+	== References ==
-	~~[[Category: Bruning, J.B~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bruning, J B]]
		+	[[Category: Kroker, A J]]
		+	[[Category: Marshall, A C]]
	[[Category: Rajapaksha, H]]		[[Category: Rajapaksha, H]]
-	[[Category: Wegener, K.L]]	+	[[Category: Wegener, K L]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Sliding clamp]]

OCA: Protected "5tup" [edit=sysop:move=sysop]

OCA — Fri, 09 Dec 2016 17:54:12 GMT

Protected "5tup" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:54, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5tup is ON HOLD until Paper Publication Authors: Bruning, J.B., Marshall, A.C., Kroker, A.J., Wegener, K.L., Rajapaksha, H. Description: X-ray Crys...

OCA — Fri, 09 Dec 2016 17:54:11 GMT

New page: '''Unreleased structure''' The entry 5tup is ON HOLD until Paper Publication Authors: Bruning, J.B., Marshall, A.C., Kroker, A.J., Wegener, K.L., Rajapaksha, H. Description: X-ray Crys...

New page

'''Unreleased structure'''

The entry 5tup is ON HOLD until Paper Publication

Authors: Bruning, J.B., Marshall, A.C., Kroker, A.J., Wegener, K.L., Rajapaksha, H.

Description: X-ray Crystal Structure of the Aspergillus fumigatus Sliding Clamp
[[Category: Unreleased Structures]]
[[Category: Kroker, A.J]]
[[Category: Marshall, A.C]]
[[Category: Bruning, J.B]]
[[Category: Rajapaksha, H]]
[[Category: Wegener, K.L]]