7d2d - Revision history

OCA at 13:30, 6 November 2024

2024-11-06T13:30:43Z

← Older revision		Revision as of 13:30, 6 November 2024
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	<StructureSection load='7d2d' size='340' side='right'caption='[[7d2d]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='7d2d' size='340' side='right'caption='[[7d2d]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>~~[[7d2d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ixodes_scapularis Ixodes scapularis].~~ Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7D2D FirstGlance]. <br>		<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7D2D FirstGlance]. <br>
	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.8Å</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]] 1.8Å</td></tr>
	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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=7d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7d2d OCA], [https://pdbe.org/7d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7d2d RCSB], [https://www.ebi.ac.uk/pdbsum/7d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7d2d 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=7d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7d2d OCA], [https://pdbe.org/7d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7d2d RCSB], [https://www.ebi.ac.uk/pdbsum/7d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7d2d ProSAT]</span></td></tr>
	</table>		</table>
	~~== Function ==~~
	[https://www.uniprot.org/uniprot/QPCT_IXOSC QPCT_IXOSC] Responsible for the biosynthesis of pyroglutamyl peptides (PubMed:23770496, PubMed:24598748). Seems to have a preference for substrates with neutral or hydrophobic amino-acid residues at the second and third positions (PubMed:24598748). Shows activity towards the peptides [Gln-1]-corazonin, [Gln-1]-periviscerokinin and [Gln-1]-sulfakinin (PubMed:24598748).<ref>PMID:23770496</ref> <ref>PMID:24598748</ref>
	<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: Ixodes scapularis]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Hsieh W-L]]		[[Category: Hsieh W-L]]

OCA at 16:24, 29 November 2023

2023-11-29T16:24:16Z

← Older revision		Revision as of 16:24, 29 November 2023
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	<StructureSection load='7d2d' size='340' side='right'caption='[[7d2d]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='7d2d' size='340' side='right'caption='[[7d2d]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7d2d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Black-legged_tick Black-legged tick~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7D2D FirstGlance]. <br>		<table><tr><td colspan='2'>[[7d2d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ixodes_scapularis Ixodes scapularis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7D2D FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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]] 1.8Å</td></tr>
	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>8042451, IscW_ISCW023264 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~6945 Black-legged tick])</td~~><~~/tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Glutaminyl-peptide_cyclotransferase Glutaminyl-peptide cyclotransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.5 2.3.2.5]~~ </~~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=7d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7d2d OCA], [https://pdbe.org/7d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7d2d RCSB], [https://www.ebi.ac.uk/pdbsum/7d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7d2d 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=7d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7d2d OCA], [https://pdbe.org/7d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7d2d RCSB], [https://www.ebi.ac.uk/pdbsum/7d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7d2d ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/QPCT_IXOSC QPCT_IXOSC] Responsible for the biosynthesis of pyroglutamyl peptides (PubMed:23770496, PubMed:24598748). Seems to have a preference for substrates with neutral or hydrophobic amino-acid residues at the second and third positions (PubMed:24598748). Shows activity towards the peptides [Gln-1]-corazonin, [Gln-1]-periviscerokinin and [Gln-1]-sulfakinin (PubMed:24598748).<ref>PMID:23770496</ref> <ref>PMID:24598748</ref>
	<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 7d2d" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7d2d" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Glutaminyl cyclase\|Glutaminyl cyclase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Black-legged tick]]~~		[[Category: Ixodes scapularis]]
	~~[[Category: Glutaminyl-peptide cyclotransferase~~]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Hsieh, W L]]		[[Category: Hsieh W-L]]
	[[Category: Huang, J S]]		[[Category: Huang J-S]]
	[[Category: Huang, K F]]		[[Category: Huang K-F]]
	[[Category: Wang~~, A H.~~J]]		[[Category: Wang AH-J]]
	[[Category: Wu, M L]]		[[Category: Wu M-L]]
	~~[[Category: Glutaminyl cyclase]]~~
	~~[[Category: Metal binding protein]]~~
	~~[[Category: Transferase~~]]

OCA at 09:11, 5 May 2021

2021-05-05T09:11:42Z

← Older revision		Revision as of 09:11, 5 May 2021
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	==Crystal structure of Ixodes scapularis glutaminyl cyclase with a Mn ion bound to the active site==		==Crystal structure of Ixodes scapularis glutaminyl cyclase with a Mn ion bound to the active site==
	<StructureSection load='7d2d' size='340' side='right'caption='[[7d2d]]' scene=''>		<StructureSection load='7d2d' size='340' side='right'caption='[[7d2d]], [[Resolution\|resolution]] 1.80Å' 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=7D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7D2D FirstGlance]. <br>		<table><tr><td colspan='2'>[[7d2d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Black-legged_tick Black-legged tick]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7D2D 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=7d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7d2d OCA], [https://pdbe.org/7d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7d2d RCSB], [https://www.ebi.ac.uk/pdbsum/7d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7d2d 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=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">8042451, IscW_ISCW023264 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6945 Black-legged tick])</td></tr>
			<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Glutaminyl-peptide_cyclotransferase Glutaminyl-peptide cyclotransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.5 2.3.2.5] </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=7d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7d2d OCA], [https://pdbe.org/7d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7d2d RCSB], [https://www.ebi.ac.uk/pdbsum/7d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7d2d ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Proteins with sequence or structure similar to those of di-Zn exopeptidases are usually classified as the M28-family enzymes, including the mammalian-type glutaminyl cyclases (QCs). QC catalyzes protein N-terminal pyroglutamate formation, a posttranslational modification important under many physiological and pathological conditions, and is a drug target for treating neurodegenerative diseases, cancers and inflammatory disorders. Without functional characterization, mammalian QCs and their orthologs remain indistinguishable at the sequence and structure levels from other M28-family proteins, leading to few reported QCs. Here, we show that a low-barrier carboxylic-acid hydrogen-bond network (CAHBN) is required for QC activity and discriminates QCs from M28-family peptidases. We demonstrate that the CAHBN-containing M28 peptidases deposited in the PDB are indeed QCs. Our analyses identify several thousands of QCs from the three domains of life, and we enzymatically and structurally characterize several. For the first time, the interplay between a CAHBN and the binuclear metal-binding center of mammalian QCs is made clear. We found that the presence or absence of CAHBN is a key discriminator for the formation of either the mono-Zn QCs or the di-Zn exopeptidases. Our study helps explain the possible roles of QCs in life.

			A unique carboxylic-acid hydrogen-bond network (CAHBN) confers glutaminyl cyclase activity on M28 family enzymes.,Huang KF, Huang JS, Wu ML, Hsieh WL, Hsu KC, Hsu HL, Ko TP, H-J Wang A J Mol Biol. 2021 Mar 24:166960. doi: 10.1016/j.jmb.2021.166960. PMID:33774034<ref>PMID:33774034</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7d2d" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Black-legged tick]]
			[[Category: Glutaminyl-peptide cyclotransferase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Hsieh W-L]]		[[Category: Hsieh, W L]]
	[[Category: Huang J-S]]		[[Category: Huang, J S]]
	[[Category: Huang K-F]]		[[Category: Huang, K F]]
	[[Category: Wang ~~AH-~~J]]		[[Category: Wang, A H.J]]
	[[Category: Wu M-L]]		[[Category: Wu, M L]]
			[[Category: Glutaminyl cyclase]]
			[[Category: Metal binding protein]]
			[[Category: Transferase]]

OCA at 06:46, 14 April 2021

2021-04-14T06:46:57Z

← Older revision		Revision as of 06:46, 14 April 2021
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	~~'''Unreleased structure'''~~

	~~The entry~~ 7d2d is ~~ON HOLD until Paper Publication~~		==Crystal structure of Ixodes scapularis glutaminyl cyclase with a Mn ion bound to the active site==
			<StructureSection load='7d2d' size='340' side='right'caption='[[7d2d]]' scene=''>
	~~Authors~~:		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7D2D 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=7d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7d2d OCA], [https://pdbe.org/7d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7d2d RCSB], [https://www.ebi.ac.uk/pdbsum/7d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7d2d ProSAT]</span></td></tr>
	[[Category: ~~Unreleased Structures~~]]		</table>
			__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Hsieh W-L]]
			[[Category: Huang J-S]]
			[[Category: Huang K-F]]
			[[Category: Wang AH-J]]
			[[Category: Wu M-L]]

OCA at 04:09, 14 October 2020

2020-10-14T04:09:43Z

← Older revision		Revision as of 04:09, 14 October 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7d2d is ON HOLD		The entry 7d2d is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7d2d" [edit=sysop:move=sysop]

2020-09-23T08:58:31Z

Protected "7d2d" [edit=sysop:move=sysop]

← Older revision	Revision as of 08:58, 23 September 2020
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7d2d is ON HOLD Authors: Description: Category: Unreleased Structures

2020-09-23T08:58:30Z

New page: '''Unreleased structure''' The entry 7d2d is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7d2d is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]