4zya - Revision history

OCA at 07:46, 18 May 2023

OCA — Thu, 18 May 2023 07:46:30 GMT

←Older revision		Revision as of 07:46, 18 May 2023
Line 3:		Line 3:
	<StructureSection load='4zya' size='340' side='right'caption='[[4zya]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='4zya' size='340' side='right'caption='[[4zya]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4zya]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZYA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4ZYA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4zya]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZYA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZYA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:~~ZINC+ION~~'>ZN</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</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=4zya FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zya OCA], [https://pdbe.org/4zya PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zya RCSB], [https://www.ebi.ac.uk/pdbsum/4zya PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zya ProSAT]</span></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zwf\|4zwf]]</td></tr>~~	+
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NARS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Asparagine--tRNA_ligase Asparagine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.22 6.1.1.22] </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=4zya FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zya OCA], [~~http~~://pdbe.org/4zya PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4zya RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4zya PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4zya ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/SYNC_HUMAN SYNC_HUMAN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Asparagine--tRNA ligase]]~~	+	[[Category: Homo sapiens]]
-	~~[[Category: Human~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Goughnour, P]]	+	[[Category: Goughnour P]]
-	[[Category: Han~~, B W~~]]	+	[[Category: Han BW]]
-	[[Category: Kim~~, H J~~]]	+	[[Category: Kim HJ]]
-	[[Category: Kim~~, H S~~]]	+	[[Category: Kim HS]]
-	[[Category: Kim~~, S H~~]]	+	[[Category: Kim SH]]
-	[[Category: Kim~~, S J~~]]	+	[[Category: Kim SJ]]
-	[[Category: Park~~, J S~~]]	+	[[Category: Park JS]]
-	[[Category: Park~~, M C]]~~	+	[[Category: Park MC]]
-	~~[[Category: Asparaginyl-trna synthetase]]~~	+
-	~~[[Category: Ligase~~]]	+

OCA at 07:31, 24 April 2019

OCA — Wed, 24 Apr 2019 07:31:06 GMT

←Older revision		Revision as of 07:31, 24 April 2019
Line 1:		Line 1:

	==The N-terminal extension domain of human asparaginyl-tRNA synthetase==		==The N-terminal extension domain of human asparaginyl-tRNA synthetase==
-	<StructureSection load='4zya' size='340' side='right' caption='[[4zya]], [[Resolution\|resolution]] 1.65Å' scene=''>	+	<StructureSection load='4zya' size='340' side='right'caption='[[4zya]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4zya]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZYA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZYA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4zya]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZYA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZYA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zwf\|4zwf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zwf\|4zwf]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NARS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Asparagine--tRNA_ligase Asparagine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.22 6.1.1.22] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Asparagine--tRNA_ligase Asparagine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.22 6.1.1.22] </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=4zya FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zya OCA], [http://pdbe.org/4zya PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zya RCSB], [http://www.ebi.ac.uk/pdbsum/4zya PDBsum]</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=4zya FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zya OCA], [http://pdbe.org/4zya PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zya RCSB], [http://www.ebi.ac.uk/pdbsum/4zya PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4zya ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Asparaginyl-tRNA synthetase (NRS) is not only essential in protein translation but also associated with autoimmune diseases. Particularly, patients with antibodies that recognize NRS often develop interstitial lung disease (ILD). However, the underlying mechanism of how NRS is recognized by immune cells and provokes inflammatory responses is not well-understood. Here, we found that the crystal structure of the unique N-terminal extension domain of human NRS (named as UNE-N, where -N denotes NRS) resembles that of the chemotactic N-terminal domain of NRS from a filarial nematode, Brugia malayi, which recruits and activates specific immune cells by interacting with CXC chemokine receptor 1 and 2. UNE-N induced migration of CC chemokine receptor 3 (CCR3)-expressing cells. The chemokine activity of UNE-N was significantly reduced by suppressing CCR3 expression with CCR3-targeting siRNA, and the loop3 region of UNE-N was shown to interact mainly with the extracellular domains of CCR3 in nuclear magnetic resonance perturbation experiments. Based on these results, evolutionarily acquired UNE-N elicits chemokine activities that would promote NRS-CCR3-mediated proinflammatory signaling in ILD.
		+
		+	Unique N-terminal extension domain of human asparaginyl-tRNA synthetase elicits CCR3-mediated chemokine activity.,Park JS, Park MC, Lee KY, Goughnour PC, Jeong SJ, Kim HS, Kim HJ, Lee BJ, Kim S, Han BW Int J Biol Macromol. 2018 Dec;120(Pt A):835-845. doi:, 10.1016/j.ijbiomac.2018.08.171. Epub 2018 Aug 30. PMID:30171954<ref>PMID:30171954</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4zya" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Aminoacyl tRNA synthetase 3D structures\|Aminoacyl tRNA synthetase 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Asparagine--tRNA ligase]]		[[Category: Asparagine--tRNA ligase]]
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Goughnour, P]]		[[Category: Goughnour, P]]
	[[Category: Han, B W]]		[[Category: Han, B W]]

OCA at 22:52, 1 June 2016

OCA — Wed, 01 Jun 2016 22:52:43 GMT

←Older revision		Revision as of 22:52, 1 June 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 4zya ~~is ON HOLD until Paper Publication~~	+	==The N-terminal extension domain of human asparaginyl-tRNA synthetase==
-		+	<StructureSection load='4zya' size='340' side='right' caption='[[4zya]], [[Resolution\|resolution]] 1.65Å' scene=''>
-	~~Authors~~: ~~Park, J~~.S.~~, Park, M~~.C.~~, Goughnour, P~~.~~, Kim, H~~.S.~~, Kim, S~~.J., ~~Kim~~, ~~H.J., Kim, S.H., Han, B.W.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4zya]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZYA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZYA FirstGlance]. <br>
-	~~Description~~: ~~The N-terminal extension domain of human asparaginyl-tRNA synthetase~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	[[~~Category~~: ~~Kim~~, S.H]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zwf\|4zwf]]</td></tr>
-	[[~~Category~~: ~~Park~~, J.S]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Asparagine--tRNA_ligase Asparagine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.22 6.1.1.22] </span></td></tr>
-	[[Category: ~~Han, B.W~~]]	+	<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=4zya FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zya OCA], [http://pdbe.org/4zya PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zya RCSB], [http://www.ebi.ac.uk/pdbsum/4zya PDBsum]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Asparagine--tRNA ligase]]
	[[Category: Goughnour, P]]		[[Category: Goughnour, P]]
-	[[Category: Kim, S.J]]	+	[[Category: Han, B W]]
-	[[Category: Kim, H.S]]	+	[[Category: Kim, H J]]
-	[[Category: ~~Park~~, ~~M.C~~]]	+	[[Category: Kim, H S]]
-	[[Category: Kim, H.J]]	+	[[Category: Kim, S H]]
		+	[[Category: Kim, S J]]
		+	[[Category: Park, J S]]
		+	[[Category: Park, M C]]
		+	[[Category: Asparaginyl-trna synthetase]]
		+	[[Category: Ligase]]

OCA at 00:15, 1 December 2015

OCA — Tue, 01 Dec 2015 00:15:32 GMT

←Older revision		Revision as of 00:15, 1 December 2015
Line 8:		Line 8:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Kim, S.H]]		[[Category: Kim, S.H]]
-	[[Category: Kim, S.J]]
-	[[Category: Kim, H.J]]
	[[Category: Park, J.S]]		[[Category: Park, J.S]]
	[[Category: Han, B.W]]		[[Category: Han, B.W]]
	[[Category: Goughnour, P]]		[[Category: Goughnour, P]]
		+	[[Category: Kim, S.J]]
	[[Category: Kim, H.S]]		[[Category: Kim, H.S]]
	[[Category: Park, M.C]]		[[Category: Park, M.C]]
		+	[[Category: Kim, H.J]]

OCA at 13:20, 17 June 2015

OCA — Wed, 17 Jun 2015 13:20:40 GMT

←Older revision		Revision as of 13:20, 17 June 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4zya is ON HOLD	+	The entry 4zya is ON HOLD until Paper Publication

-	Authors: Park, J.S., Park, M.C., Goughnour, P., Kim, H.S., Kim, S.-J., Kim, H.-J., Kim, S.H., Han, B.W.	+	Authors: Park, J.S., Park, M.C., Goughnour, P., Kim, H.S., Kim, S.J., Kim, H.J., Kim, S.H., Han, B.W.

-	Description: ~~Human~~ asparaginyl tRNA synthetase ~~chemokine domain~~	+	Description: The N-terminal extension domain of human asparaginyl-tRNA synthetase
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Kim, S.H]]		[[Category: Kim, S.H]]
-	[[Category: Kim, S.-J]]	+	[[Category: Kim, S.J]]
-	[[Category: Kim, H.-J]]	+	[[Category: Kim, H.J]]
	[[Category: Park, J.S]]		[[Category: Park, J.S]]
	[[Category: Han, B.W]]		[[Category: Han, B.W]]

OCA: Protected "4zya" [edit=sysop:move=sysop]

OCA — Wed, 27 May 2015 14:54:22 GMT

Protected "4zya" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:54, 27 May 2015

OCA: New page: '''Unreleased structure''' The entry 4zya is ON HOLD Authors: Park, J.S., Park, M.C., Goughnour, P., Kim, H.S., Kim, S.-J., Kim, H.-J., Kim, S.H., Han, B.W. Description: Human asparagi...

OCA — Wed, 27 May 2015 14:54:21 GMT

New page: '''Unreleased structure''' The entry 4zya is ON HOLD Authors: Park, J.S., Park, M.C., Goughnour, P., Kim, H.S., Kim, S.-J., Kim, H.-J., Kim, S.H., Han, B.W. Description: Human asparagi...

New page

'''Unreleased structure'''

The entry 4zya is ON HOLD

Authors: Park, J.S., Park, M.C., Goughnour, P., Kim, H.S., Kim, S.-J., Kim, H.-J., Kim, S.H., Han, B.W.

Description: Human asparaginyl tRNA synthetase chemokine domain
[[Category: Unreleased Structures]]
[[Category: Kim, S.H]]
[[Category: Kim, S.-J]]
[[Category: Kim, H.-J]]
[[Category: Park, J.S]]
[[Category: Han, B.W]]
[[Category: Goughnour, P]]
[[Category: Kim, H.S]]
[[Category: Park, M.C]]