6nnu - Revision history

OCA at 06:56, 11 October 2023

OCA — Wed, 11 Oct 2023 06:56:45 GMT

←Older revision		Revision as of 06:56, 11 October 2023
Line 3:		Line 3:
	<StructureSection load='6nnu' size='340' side='right'caption='[[6nnu]], [[Resolution\|resolution]] 1.46Å' scene=''>		<StructureSection load='6nnu' size='340' side='right'caption='[[6nnu]], [[Resolution\|resolution]] 1.46Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6nnu]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Xanac Xanac~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NNU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6NNU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6nnu]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Xanthomonas_citri_pv._citri_str._306 Xanthomonas citri pv. citri str. 306]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NNU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6NNU FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=CA:CALCIUM+ION'>CA</scene~~>, ~~<scene name='pdbligand=G16:ALPHA-D-GLUCOSE+~~1~~,6-BISPHOSPHATE'>G16</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 1.46Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~SEP~~:~~PHOSPHOSERINE~~'>~~SEP~~</scene><~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=G16:ALPHA-D-GLUCOSE+1,6-BISPHOSPHATE'>G16</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
-	<~~tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td>~~<td class="sblockDat">[[6nn1\|6nn1]]~~, ~~[[6nn2\|6nn2]], [[6nno\|6nno]], [[6nnn\|6nnn]], [[6nns\|6nns]], [[6nnp\|6nnp]], [[6nnt\|6nnt]]~~<~~/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=6nnu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nnu OCA], [https://pdbe.org/6nnu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6nnu RCSB], [https://www.ebi.ac.uk/pdbsum/6nnu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6nnu ProSAT]</span></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">xanA, XAC3579 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=190486 XANAC])~~</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=6nnu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nnu OCA], [~~http~~://pdbe.org/6nnu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6nnu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6nnu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6nnu ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8PGN7_XANAC Q8PGN7_XANAC]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Xanac~~]]	+	[[Category: Xanthomonas citri pv. citri str. 306]]
-	[[Category: Beamer~~, L J~~]]	+	[[Category: Beamer LJ]]
-	[[Category: Stiers~~, K M]]~~	+	[[Category: Stiers KM]]
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Phosphoglucomutase~~]]	+

OCA at 08:22, 21 May 2019

OCA — Tue, 21 May 2019 08:22:17 GMT

←Older revision		Revision as of 08:22, 21 May 2019
Line 3:		Line 3:
	<StructureSection load='6nnu' size='340' side='right'caption='[[6nnu]], [[Resolution\|resolution]] 1.46Å' scene=''>		<StructureSection load='6nnu' size='340' side='right'caption='[[6nnu]], [[Resolution\|resolution]] 1.46Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6nnu]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NNU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NNU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6nnu]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Xanac Xanac]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NNU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NNU FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=G16:ALPHA-D-GLUCOSE+1,6-BISPHOSPHATE'>G16</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=G16:ALPHA-D-GLUCOSE+1,6-BISPHOSPHATE'>G16</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6nn1\|6nn1]], [[6nn2\|6nn2]], [[6nno\|6nno]], [[6nnn\|6nnn]], [[6nns\|6nns]], [[6nnp\|6nnp]], [[6nnt\|6nnt]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6nn1\|6nn1]], [[6nn2\|6nn2]], [[6nno\|6nno]], [[6nnn\|6nnn]], [[6nns\|6nns]], [[6nnp\|6nnp]], [[6nnt\|6nnt]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">xanA, XAC3579 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=190486 XANAC])</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=6nnu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nnu OCA], [http://pdbe.org/6nnu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nnu RCSB], [http://www.ebi.ac.uk/pdbsum/6nnu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nnu 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=6nnu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nnu OCA], [http://pdbe.org/6nnu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nnu RCSB], [http://www.ebi.ac.uk/pdbsum/6nnu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nnu ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Enzymes are known to adopt various conformations at different points along their catalytic cycles. Here, we present a comprehensive analysis of 15 isomorphous, high resolution crystal structures of the enzyme phosphoglucomutase from the bacterium Xanthomonas citri. The protein was captured in distinct states critical to function, including enzyme-substrate, enzyme-product, and enzyme-intermediate complexes. Key residues in ligand recognition and regions undergoing conformational change are identified and correlated with the various steps of the catalytic reaction. In addition, we use principal component analysis to examine various subsets of these structures with two goals: (1) identifying sites of conformational heterogeneity through a comparison of room temperature and cryogenic structures of the apo-enzyme and (2) a priori clustering of the enzyme-ligand complexes into functionally related groups, showing sensitivity of this method to structural features difficult to detect by traditional methods. This study captures, in a single system, the structural basis of diverse substrate recognition, the subtle impact of covalent modification, and the role of ligand-induced conformational change in this representative enzyme of the alpha-D-phosphohexomutase superfamily.
		+
		+	Structural and dynamical description of the enzymatic reaction of a phosphohexomutase.,Stiers KM, Graham AC, Zhu JS, Jakeman DL, Nix JC, Beamer LJ Struct Dyn. 2019 Apr 1;6(2):024703. doi: 10.1063/1.5092803. eCollection 2019 Mar. PMID:31041362<ref>PMID:31041362</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6nnu" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Xanac]]
	[[Category: Beamer, L J]]		[[Category: Beamer, L J]]
	[[Category: Stiers, K M]]		[[Category: Stiers, K M]]
	[[Category: Isomerase]]		[[Category: Isomerase]]
	[[Category: Phosphoglucomutase]]		[[Category: Phosphoglucomutase]]

OCA at 07:28, 10 April 2019

OCA — Wed, 10 Apr 2019 07:28:37 GMT

←Older revision		Revision as of 07:28, 10 April 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6nnu ~~is ON HOLD~~	+	==Xanthomonas citri Phospho-PGM in complex with glucose-1,6-phosphate==
-		+	<StructureSection load='6nnu' size='340' side='right'caption='[[6nnu]], [[Resolution\|resolution]] 1.46Å' scene=''>
-	~~Authors~~: ~~Stiers, K~~.M.~~, Beamer, L~~.J.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6nnu]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NNU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NNU FirstGlance]. <br>
-	~~Description~~: ~~Xanthomonas citri Phospho~~-~~PGM in complex with glucose~~-1,6-~~phosphate~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=G16:ALPHA-D-GLUCOSE+1,6-BISPHOSPHATE'>G16</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
-	[[Category: Beamer, L.J]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6nn1\|6nn1]], [[6nn2\|6nn2]], [[6nno\|6nno]], [[6nnn\|6nnn]], [[6nns\|6nns]], [[6nnp\|6nnp]], [[6nnt\|6nnt]]</td></tr>
-	[[Category: Stiers, K.M]]	+	<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=6nnu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nnu OCA], [http://pdbe.org/6nnu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nnu RCSB], [http://www.ebi.ac.uk/pdbsum/6nnu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nnu ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Beamer, L J]]
		+	[[Category: Stiers, K M]]
		+	[[Category: Isomerase]]
		+	[[Category: Phosphoglucomutase]]

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

OCA — Wed, 30 Jan 2019 06:39:36 GMT

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

←Older revision

Revision as of 06:39, 30 January 2019

OCA: New page: '''Unreleased structure''' The entry 6nnu is ON HOLD Authors: Stiers, K.M., Beamer, L.J. Description: Xanthomonas citri Phospho-PGM in complex with glucose-1,6-phosphate [[Category: Un...

OCA — Wed, 30 Jan 2019 06:39:35 GMT

New page: '''Unreleased structure''' The entry 6nnu is ON HOLD Authors: Stiers, K.M., Beamer, L.J. Description: Xanthomonas citri Phospho-PGM in complex with glucose-1,6-phosphate [[Category: Un...

New page

'''Unreleased structure'''

The entry 6nnu is ON HOLD

Authors: Stiers, K.M., Beamer, L.J.

Description: Xanthomonas citri Phospho-PGM in complex with glucose-1,6-phosphate
[[Category: Unreleased Structures]]
[[Category: Beamer, L.J]]
[[Category: Stiers, K.M]]