7pyf - Revision history

OCA at 13:10, 1 February 2024

2024-02-01T13:10:57Z

← Older revision		Revision as of 13:10, 1 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7pyf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Panus_similis Panus similis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7PYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7PYF FirstGlance]. <br>		<table><tr><td colspan='2'>[[7pyf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Panus_similis Panus similis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7PYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7PYF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HIC:4-METHYL-HISTIDINE'>HIC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900011:beta-cellotetraose'>PRD_900011</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]] 1.9Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HIC:4-METHYL-HISTIDINE'>HIC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900011:beta-cellotetraose'>PRD_900011</scene></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=7pyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7pyf OCA], [https://pdbe.org/7pyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7pyf RCSB], [https://www.ebi.ac.uk/pdbsum/7pyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7pyf 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=7pyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7pyf OCA], [https://pdbe.org/7pyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7pyf RCSB], [https://www.ebi.ac.uk/pdbsum/7pyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7pyf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/A0A0S2GKZ1_9APHY A0A0S2GKZ1_9APHY]]		[https://www.uniprot.org/uniprot/A0A0S2GKZ1_9APHY A0A0S2GKZ1_9APHY]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:53, 21 September 2022

2022-09-21T07:53:32Z

← Older revision		Revision as of 07:53, 21 September 2022
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	==Structure of LPMO in complex with cellotetraose at 1.39x10^5 Gy==		==Structure of LPMO in complex with cellotetraose at 1.39x10^5 Gy==
	<StructureSection load='7pyf' size='340' side='right'caption='[[7pyf]]' scene=''>		<StructureSection load='7pyf' size='340' side='right'caption='[[7pyf]], [[Resolution\|resolution]] 1.90Å' 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=7PYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7PYF FirstGlance]. <br>		<table><tr><td colspan='2'>[[7pyf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Panus_similis Panus similis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7PYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7PYF 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=7pyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7pyf OCA], [https://pdbe.org/7pyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7pyf RCSB], [https://www.ebi.ac.uk/pdbsum/7pyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7pyf ProSAT]</span></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HIC:4-METHYL-HISTIDINE'>HIC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900011:beta-cellotetraose'>PRD_900011</scene></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=7pyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7pyf OCA], [https://pdbe.org/7pyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7pyf RCSB], [https://www.ebi.ac.uk/pdbsum/7pyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7pyf ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[[https://www.uniprot.org/uniprot/A0A0S2GKZ1_9APHY A0A0S2GKZ1_9APHY]]
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The recently discovered lytic polysaccharide monooxygenases (LPMOs) are Cu-containing enzymes capable of degrading polysaccharide substrates oxidatively. The generally accepted first step in the LPMO reaction is the reduction of the active-site metal ion from Cu(2+) to Cu(+). Here we have used a systematic diffraction data collection method to monitor structural changes in two AA9 LPMOs, one from Lentinus similis (LsAA9_A) and one from Thermoascus auranti-acus (TaAA9_A), as the active-site Cu is photoreduced in the X-ray beam. For LsAA9_A, the protein produced in two different recombinant systems was crystallized to probe the effect of post-translational modifications and different crystallization conditions on the active site and metal photoreduction. We can recommend that crystallographic studies of AA9 LPMOs wishing to address the Cu(2+) form use a total X-ray dose below 3 x 10(4) Gy, while the Cu(+) form can be attained using 1 x 10(6) Gy. In all cases, we observe the transition from a hexa-coordinated Cu site with two solvent-facing ligands to a T-shaped geometry with no exogenous ligands, and a clear increase of the theta2 parameter and a decrease of the theta3 parameter by averages of 9.2 degrees and 8.4 degrees , respectively, but also a slight increase in thetaT. Thus, the theta2 and theta3 parameters are helpful diagnostics for the oxidation state of the metal in a His-brace protein. On binding of cello-oligosaccharides to LsAA9_A, regardless of the production source, the thetaT parameter increases, making the Cu site less planar, while the active-site Tyr-Cu distance decreases reproducibly for the Cu(2+) form. Thus, the thetaT increase found on copper reduction may bring LsAA9_A closer to an oligosaccharide-bound state and contribute to the observed higher affinity of reduced LsAA9_A for cellulosic substrates.

			Changes in active-site geometry on X-ray photoreduction of a lytic polysaccharide monooxygenase active-site copper and saccharide binding.,Tandrup T, Muderspach SJ, Banerjee S, Santoni G, Ipsen JO, Hernandez-Rollan C, Norholm MHH, Johansen KS, Meilleur F, Lo Leggio L IUCrJ. 2022 Aug 17;9(Pt 5):666-681. doi: 10.1107/S2052252522007175. eCollection, 2022 Sep 1. PMID:36071795<ref>PMID:36071795</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7pyf" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
			[[Category: Panus similis]]
	[[Category: Lo Leggio L]]		[[Category: Lo Leggio L]]
	[[Category: Tandrup T]]		[[Category: Tandrup T]]

OCA at 04:47, 25 August 2022

2022-08-25T04:47:28Z

← Older revision		Revision as of 04:47, 25 August 2022
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	~~'''Unreleased structure'''~~

	~~The entry~~ 7pyf is ~~ON HOLD until Paper Publication~~		==Structure of LPMO in complex with cellotetraose at 1.39x10^5 Gy==
			<StructureSection load='7pyf' size='340' side='right'caption='[[7pyf]]' scene=''>
	~~Authors~~:		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7PYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7PYF FirstGlance]. <br>
	~~Description~~:		</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=7pyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7pyf OCA], [https://pdbe.org/7pyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7pyf RCSB], [https://www.ebi.ac.uk/pdbsum/7pyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7pyf ProSAT]</span></td></tr>
	[[Category: ~~Unreleased Structures~~]]		</table>
			__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Lo Leggio L]]
			[[Category: Tandrup T]]

OCA at 12:00, 17 November 2021

2021-11-17T12:00:16Z

← Older revision		Revision as of 12:00, 17 November 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7pyf is ON HOLD		The entry 7pyf is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7pyf" [edit=sysop:move=sysop]

2021-10-20T14:57:24Z

Protected "7pyf" [edit=sysop:move=sysop]

← Older revision	Revision as of 14:57, 20 October 2021
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7pyf is ON HOLD Authors: Description: Category: Unreleased Structures

2021-10-20T14:57:23Z

New page: '''Unreleased structure''' The entry 7pyf is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7pyf is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]