7rou - Revision history

OCA at 16:35, 18 October 2023

2023-10-18T16:35:07Z

←Older revision		Revision as of 16:35, 18 October 2023
Line 3:		Line 3:
	<StructureSection load='7rou' size='340' side='right'caption='[[7rou]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='7rou' size='340' side='right'caption='[[7rou]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7rou]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ROU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ROU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7rou]] is a 1 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=7ROU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ROU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=66I:{(2R,3S,4R,5R)-5-[4-amino-3-(difluoromethoxy)-1H-pyrazolo[3,4-d]pyrimidin-1-yl]-3,4-dihydroxyoxolan-2-yl}methyl+[(2S)-2-amino-3-(4-hydroxyphenyl)propanoyl]sulfamate+(non-preferred+name)'>66I</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.7Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Tyrosine--tRNA_ligase Tyrosine--tRNA ligase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.1 6.1.1.1] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=66I:{(2R,3S,4R,5R)-5-[4-amino-3-(difluoromethoxy)-1H-pyrazolo[3,4-d]pyrimidin-1-yl]-3,4-dihydroxyoxolan-2-yl}methyl+[(2S)-2-amino-3-(4-hydroxyphenyl)propanoyl]sulfamate+(non-preferred+name)'>66I</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=7rou FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rou OCA], [https://pdbe.org/7rou PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rou RCSB], [https://www.ebi.ac.uk/pdbsum/7rou PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rou 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=7rou FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rou OCA], [https://pdbe.org/7rou PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rou RCSB], [https://www.ebi.ac.uk/pdbsum/7rou PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rou ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[[https://www.uniprot.org/uniprot/SYYC_HUMAN SYYC_HUMAN]] Defects in YARS are the cause of Charcot-Marie-Tooth disease dominant intermediate type C (CMTDIC) [MIM:[https://omim.org/entry/608323 608323]]. CMTDIC is a form of Charcot-Marie-Tooth disease characterized by clinical and pathologic features intermediate between demyelinating and axonal peripheral neuropathies, and motor median nerve conduction velocities ranging from 25 to 45 m/sec.<ref>PMID:16429158</ref>	+	[https://www.uniprot.org/uniprot/SYYC_HUMAN SYYC_HUMAN] Defects in YARS are the cause of Charcot-Marie-Tooth disease dominant intermediate type C (CMTDIC) [MIM:[https://omim.org/entry/608323 608323]. CMTDIC is a form of Charcot-Marie-Tooth disease characterized by clinical and pathologic features intermediate between demyelinating and axonal peripheral neuropathies, and motor median nerve conduction velocities ranging from 25 to 45 m/sec.<ref>PMID:16429158</ref>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SYYC_HUMAN SYYC_HUMAN]] Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr) (By similarity).	+	[https://www.uniprot.org/uniprot/SYYC_HUMAN SYYC_HUMAN] Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr) (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 7rou" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7rou" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Aminoacyl tRNA synthetase 3D structures\|Aminoacyl tRNA synthetase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Tyrosine--tRNA ligase]]~~	+	[[Category: Griffin MDW]]
-	[[Category: Griffin~~, M D.W~~]]	+	[[Category: Metcalfe RD]]
-	[[Category: Metcalfe~~, R D~~]]	+	[[Category: Morton CJ]]
-	[[Category: Morton~~, C J~~]]	+	[[Category: Tilley L]]
-	[[Category: Tilley, L]]	+	[[Category: Xie SC]]
-	[[Category: Xie~~, S C]]~~	+
-	~~[[Category: Enzyme]]~~	+
-	~~[[Category: Inhibitor]]~~	+
-	~~[[Category: Ligase]]~~	+
-	~~[[Category: Malaria]]~~	+
-	~~[[Category: Tyrosine-amp]]~~	+
-	~~[[Category: Tyrosyl-trna synthetase~~]]	+

OCA at 07:33, 29 June 2022

2022-06-29T07:33:27Z

←Older revision		Revision as of 07:33, 29 June 2022
Line 1:		Line 1:

	==Structure of human tyrosyl tRNA synthetase in complex with ML901-Tyr==		==Structure of human tyrosyl tRNA synthetase in complex with ML901-Tyr==
-	<StructureSection load='7rou' size='340' side='right'caption='[[7rou]]' scene=''>	+	<StructureSection load='7rou' size='340' side='right'caption='[[7rou]], [[Resolution\|resolution]] 1.70Å' 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=7ROU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ROU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7rou]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ROU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ROU 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=7rou FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rou OCA], [https://pdbe.org/7rou PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rou RCSB], [https://www.ebi.ac.uk/pdbsum/7rou PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rou 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=66I:{(2R,3S,4R,5R)-5-[4-amino-3-(difluoromethoxy)-1H-pyrazolo[3,4-d]pyrimidin-1-yl]-3,4-dihydroxyoxolan-2-yl}methyl+[(2S)-2-amino-3-(4-hydroxyphenyl)propanoyl]sulfamate+(non-preferred+name)'>66I</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Tyrosine--tRNA_ligase Tyrosine--tRNA ligase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.1 6.1.1.1] </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=7rou FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rou OCA], [https://pdbe.org/7rou PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rou RCSB], [https://www.ebi.ac.uk/pdbsum/7rou PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rou ProSAT]</span></td></tr>
	</table>		</table>
		+	== Disease ==
		+	[[https://www.uniprot.org/uniprot/SYYC_HUMAN SYYC_HUMAN]] Defects in YARS are the cause of Charcot-Marie-Tooth disease dominant intermediate type C (CMTDIC) [MIM:[https://omim.org/entry/608323 608323]]. CMTDIC is a form of Charcot-Marie-Tooth disease characterized by clinical and pathologic features intermediate between demyelinating and axonal peripheral neuropathies, and motor median nerve conduction velocities ranging from 25 to 45 m/sec.<ref>PMID:16429158</ref>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/SYYC_HUMAN SYYC_HUMAN]] Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr) (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Aminoacyl transfer RNA (tRNA) synthetases (aaRSs) are attractive drug targets, and we present class I and II aaRSs as previously unrecognized targets for adenosine 5'-monophosphate-mimicking nucleoside sulfamates. The target enzyme catalyzes the formation of an inhibitory amino acid-sulfamate conjugate through a reaction-hijacking mechanism. We identified adenosine 5'-sulfamate as a broad-specificity compound that hijacks a range of aaRSs and ML901 as a specific reagent a specific reagent that hijacks a single aaRS in the malaria parasite Plasmodium falciparum, namely tyrosine RS (PfYRS). ML901 exerts whole-life-cycle-killing activity with low nanomolar potency and single-dose efficacy in a mouse model of malaria. X-ray crystallographic studies of plasmodium and human YRSs reveal differential flexibility of a loop over the catalytic site that underpins differential susceptibility to reaction hijacking by ML901.
		+
		+	Reaction hijacking of tyrosine tRNA synthetase as a new whole-of-life-cycle antimalarial strategy.,Xie SC, Metcalfe RD, Dunn E, Morton CJ, Huang SC, Puhalovich T, Du Y, Wittlin S, Nie S, Luth MR, Ma L, Kim MS, Pasaje CFA, Kumpornsin K, Giannangelo C, Houghton FJ, Churchyard A, Famodimu MT, Barry DC, Gillett DL, Dey S, Kosasih CC, Newman W, Niles JC, Lee MCS, Baum J, Ottilie S, Winzeler EA, Creek DJ, Williamson N, Parker MW, Brand S, Langston SP, Dick LR, Griffin MDW, Gould AE, Tilley L Science. 2022 Jun 3;376(6597):1074-1079. doi: 10.1126/science.abn0611. Epub 2022 , Jun 2. PMID:35653481<ref>PMID:35653481</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7rou" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Griffin ~~MDW~~]]	+	[[Category: Tyrosine--tRNA ligase]]
-	[[Category: Metcalfe RD]]	+	[[Category: Griffin, M D.W]]
-	[[Category: Morton CJ]]	+	[[Category: Metcalfe, R D]]
-	[[Category: Tilley L]]	+	[[Category: Morton, C J]]
-	[[Category: Xie SC]]	+	[[Category: Tilley, L]]
		+	[[Category: Xie, S C]]
		+	[[Category: Enzyme]]
		+	[[Category: Inhibitor]]
		+	[[Category: Ligase]]
		+	[[Category: Malaria]]
		+	[[Category: Tyrosine-amp]]
		+	[[Category: Tyrosyl-trna synthetase]]

OCA at 05:29, 8 June 2022

2022-06-08T05:29:39Z

←Older revision		Revision as of 05:29, 8 June 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7rou ~~is ON HOLD until Paper Publication~~	+	==Structure of human tyrosyl tRNA synthetase in complex with ML901-Tyr==
-		+	<StructureSection load='7rou' size='340' side='right'caption='[[7rou]]' scene=''>
-	~~Authors~~: ~~Metcalfe, R~~.D.~~, Xie, S~~.C., ~~Morton, C~~.J., ~~Tilley~~, L., ~~Griffin, M~~.D.W.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ROU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ROU FirstGlance]. <br>
-	~~Description~~: ~~Structure of human tyrosyl tRNA synthetase in complex with ML901~~-~~Tyr~~	+	</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=7rou FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rou OCA], [https://pdbe.org/7rou PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rou RCSB], [https://www.ebi.ac.uk/pdbsum/7rou PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rou ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Morton, C.J~~]]	+	__TOC__
-	[[Category: Metcalfe~~, R.D~~]]	+	</StructureSection>
-	[[Category: ~~Tilley, L~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Griffin, M.D.W~~]]	+	[[Category: Griffin MDW]]
-	[[Category: Xie~~, S.C~~]]	+	[[Category: Metcalfe RD]]
		+	[[Category: Morton CJ]]
		+	[[Category: Tilley L]]
		+	[[Category: Xie SC]]

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

2021-08-11T05:11:44Z

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

←Older revision

Revision as of 05:11, 11 August 2021

OCA: New page: '''Unreleased structure''' The entry 7rou is ON HOLD until Paper Publication Authors: Metcalfe, R.D., Xie, S.C., Morton, C.J., Tilley, L., Griffin, M.D.W. Description: Structure of hum...

2021-08-11T05:11:43Z

New page: '''Unreleased structure''' The entry 7rou is ON HOLD until Paper Publication Authors: Metcalfe, R.D., Xie, S.C., Morton, C.J., Tilley, L., Griffin, M.D.W. Description: Structure of hum...

New page

'''Unreleased structure'''

The entry 7rou is ON HOLD until Paper Publication

Authors: Metcalfe, R.D., Xie, S.C., Morton, C.J., Tilley, L., Griffin, M.D.W.

Description: Structure of human tyrosyl tRNA synthetase in complex with ML901-Tyr
[[Category: Unreleased Structures]]
[[Category: Morton, C.J]]
[[Category: Metcalfe, R.D]]
[[Category: Tilley, L]]
[[Category: Griffin, M.D.W]]
[[Category: Xie, S.C]]