5fom - Revision history

OCA at 07:01, 19 July 2023

2023-07-19T07:01:51Z

←Older revision		Revision as of 07:01, 19 July 2023
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	<StructureSection load='5fom' size='340' side='right'caption='[[5fom]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5fom' size='340' side='right'caption='[[5fom]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fom]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FOM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5FOM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fom]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Cryptosporidium_muris_RN66 Cryptosporidium muris RN66]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FOM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FOM FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=A2H:4-CHLORO-3-AMINOMETHYL-7~~-[~~ETHOXY]-3H-BENZO~~[C]~~[1,~~2~~]OXABOROL-~~1~~-OL+MODIFIED+ADENOSINE'>A2H</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 2.1Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">[~~[5fo4\|5fo4~~]], [~~[5foc\|5foc~~]], [~~[5fod\|5fod]]~~, ~~[[5fof\|5fof~~]~~], [[5fog\|5fog]], [[5fol\|5fol]], [[5fon\|5fon]]</td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A2H:4-CHLORO-3-AMINOMETHYL-7-[ETHOXY]-3H-BENZO[C][1,2]OXABOROL-1-OL+MODIFIED+ADENOSINE'>A2H</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[http://en.wikipedia.org/wiki/Leucine--tRNA_ligase Leucine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.4 6.1.1.4]~~ </~~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=5fom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fom OCA], [https://pdbe.org/5fom PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5fom RCSB], [https://www.ebi.ac.uk/pdbsum/5fom PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5fom ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5fom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fom OCA], [~~http~~://pdbe.org/5fom PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5fom RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5fom PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5fom ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/B6AA20_CRYMR B6AA20_CRYMR]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Cryptosporidium muris RN66]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Leucine--tRNA ligase]]~~	+	[[Category: Alley MRK]]
-	[[Category: Alley~~, M R.K~~]]	+	[[Category: Bougdour A]]
-	[[Category: Bougdour, A]]	+	[[Category: Cusack S]]
-	[[Category: Cusack, S]]	+	[[Category: Gut J]]
-	[[Category: Gut, J]]	+	[[Category: Hakimi MA]]
-	[[Category: Hakimi~~, M A~~]]	+	[[Category: Liu RJ]]
-	[[Category: Liu~~, R J~~]]	+	[[Category: Lukarska M]]
-	[[Category: Lukarska, M]]	+	[[Category: Palencia A]]
-	[[Category: Palencia, A]]	+	[[Category: Rosenthal PJ]]
-	[[Category: Rosenthal~~, P J~~]]	+	[[Category: Touquet B]]
-	[[Category: Touquet, B]]	+	[[Category: Wang ED]]
-	[[Category: Wang~~, E D]]~~	+
-	~~[[Category: Aminoacyl-trna synthetase]]~~	+
-	~~[[Category: Cryptosporidium]]~~	+
-	~~[[Category: Ligase]]~~	+
-	~~[[Category: Novel boron inhibitors of the editing site of leur]]~~	+
-	~~[[Category: Post-transfer editing activity of leur]]~~	+
-	~~[[Category: Protein biosynthesis~~]]	+

OCA at 07:29, 6 May 2020

2020-05-06T07:29:21Z

←Older revision		Revision as of 07:29, 6 May 2020
Line 1:		Line 1:

	==Crystal structure of the Cryptosporidium muris cytosolic leucyl-tRNA synthetase editing domain complex with the adduct AMP-AN6426==		==Crystal structure of the Cryptosporidium muris cytosolic leucyl-tRNA synthetase editing domain complex with the adduct AMP-AN6426==
-	<StructureSection load='5fom' size='340' side='right' caption='[[5fom]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='5fom' size='340' side='right'caption='[[5fom]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fom]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FOM OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5FOM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fom]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FOM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5FOM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A2H:4-CHLORO-3-AMINOMETHYL-7-[ETHOXY]-3H-BENZO[C][1,2]OXABOROL-1-OL+MODIFIED+ADENOSINE'>A2H</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A2H:4-CHLORO-3-AMINOMETHYL-7-[ETHOXY]-3H-BENZO[C][1,2]OXABOROL-1-OL+MODIFIED+ADENOSINE'>A2H</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fo4\|5fo4]], [[5foc\|5foc]], [[5fod\|5fod]], [[5fof\|5fof]], [[5fog\|5fog]], [[5fol\|5fol]], [[5fon\|5fon]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fo4\|5fo4]], [[5foc\|5foc]], [[5fod\|5fod]], [[5fof\|5fof]], [[5fog\|5fog]], [[5fol\|5fol]], [[5fon\|5fon]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Leucine--tRNA_ligase Leucine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.4 6.1.1.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Leucine--tRNA_ligase Leucine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.4 6.1.1.4] </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=5fom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fom OCA], [http://pdbe.org/5fom PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fom RCSB], [http://www.ebi.ac.uk/pdbsum/5fom PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fom ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5fom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fom OCA], [http://pdbe.org/5fom PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fom RCSB], [http://www.ebi.ac.uk/pdbsum/5fom PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fom ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5fom" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5fom" 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: Large Structures]]
	[[Category: Leucine--tRNA ligase]]		[[Category: Leucine--tRNA ligase]]
	[[Category: Alley, M R.K]]		[[Category: Alley, M R.K]]

OCA at 07:51, 10 August 2016

2016-08-10T07:51:47Z

←Older revision		Revision as of 07:51, 10 August 2016
Line 9:		Line 9:
	<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=5fom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fom OCA], [http://pdbe.org/5fom PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fom RCSB], [http://www.ebi.ac.uk/pdbsum/5fom PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fom 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=5fom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fom OCA], [http://pdbe.org/5fom PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fom RCSB], [http://www.ebi.ac.uk/pdbsum/5fom PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fom ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The apicomplexan parasites Cryptosporidium and Toxoplasma are serious threats to human health. Cryptosporidiosis is a severe diarrheal disease in malnourished children and immunocompromised individuals, with the only FDA approved drug treatment currently being nitazoxanide. The existing therapies for toxoplasmosis, an important pathology in immunocompromised individuals and pregnant women, also have serious limitations. With the aim of developing alternative therapeutic options to address these health problems, we tested a number of benzoxaboroles, boron-containing compounds shown to be active against various infectious agents, for growth inhibition of Cryptosporidium parasites in mammalian cells. A 3-aminomethyl benzoxaborole, AN6426, with activity in the micromolar range and comparable to nitazoxanide, was identified and further characterised using biophysical measurements of affinity and crystal structures of complexes with the editing domain of Cryptosporidium leucyl-tRNA synthetase (LeuRS). The same compound was shown to be active against Toxoplasma parasites, with the activity being enhanced in the presence of norvaline, an amino acid that can be mischarged by LeuRS. Our observations are consistent with AN6426 inhibiting protein synthesis in both Cryptosporidium and Toxoplasma by forming a covalent adduct with tRNALeu in the LeuRS editing active site, which suggest that further exploitation of the benzoxaboroles scaffold is a valid strategy to develop novel, much needed antiparasitic agents.
		+
		+	Cryptosporidium and Toxoplasma parasites are inhibited by a benzoxaborole targeting leucyl-tRNA synthetase.,Palencia A, Liu RJ, Lukarska M, Gut J, Bougdour A, Touquet B, Wang ED, Li X, Alley MR, Freund YR, Rosenthal PJ, Hakimi MA, Cusack S Antimicrob Agents Chemother. 2016 Jul 18. pii: AAC.00873-16. PMID:27431220<ref>PMID:27431220</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5fom" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 04:14, 4 August 2016

2016-08-04T04:14:12Z

←Older revision		Revision as of 04:14, 4 August 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5fom ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of the Cryptosporidium muris cytosolic leucyl-tRNA synthetase editing domain complex with the adduct AMP-AN6426==
-		+	<StructureSection load='5fom' size='340' side='right' caption='[[5fom]], [[Resolution\|resolution]] 2.10Å' scene=''>
-	~~Authors~~: ~~Palencia, A~~.~~, Liu, R~~.J., ~~Lukarska~~, M., ~~Gut~~, J., ~~Bougdour~~, A., ~~Touquet~~, B., ~~Wang, E~~.D., ~~Alley, M~~.R.K., ~~Rosenthal~~, P.J., ~~Hakimi, M~~.A., ~~Cusack, S~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5fom]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FOM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FOM FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of the Cryptosporidium muris cytosolic leucyl~~-~~tRNA synthetase editing domain complex with the adduct AMP~~-~~AN6426~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A2H:4-CHLORO-3-AMINOMETHYL-7-[ETHOXY]-3H-BENZO[C][1,2]OXABOROL-1-OL+MODIFIED+ADENOSINE'>A2H</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fo4\|5fo4]], [[5foc\|5foc]], [[5fod\|5fod]], [[5fof\|5fof]], [[5fog\|5fog]], [[5fol\|5fol]], [[5fon\|5fon]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Leucine--tRNA_ligase Leucine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.4 6.1.1.4] </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=5fom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fom OCA], [http://pdbe.org/5fom PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fom RCSB], [http://www.ebi.ac.uk/pdbsum/5fom PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fom ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Leucine--tRNA ligase]]
		+	[[Category: Alley, M R.K]]
	[[Category: Bougdour, A]]		[[Category: Bougdour, A]]
-	[[Category: Alley, M.R.K]]
	[[Category: Cusack, S]]		[[Category: Cusack, S]]
		+	[[Category: Gut, J]]
		+	[[Category: Hakimi, M A]]
		+	[[Category: Liu, R J]]
		+	[[Category: Lukarska, M]]
	[[Category: Palencia, A]]		[[Category: Palencia, A]]
		+	[[Category: Rosenthal, P J]]
	[[Category: Touquet, B]]		[[Category: Touquet, B]]
-	[[Category: Wang, E.D]]	+	[[Category: Wang, E D]]
-	[[Category: ~~Rosenthal, P.J~~]]	+	[[Category: Aminoacyl-trna synthetase]]
-	[[Category: ~~Liu, R.J~~]]	+	[[Category: Cryptosporidium]]
-	[[Category: ~~Lukarska, M~~]]	+	[[Category: Ligase]]
-	[[Category: ~~Gut, J~~]]	+	[[Category: Novel boron inhibitors of the editing site of leur]]
-	[[Category: ~~Hakimi, M.A~~]]	+	[[Category: Post-transfer editing activity of leur]]
		+	[[Category: Protein biosynthesis]]

OCA at 23:03, 10 May 2016

2016-05-10T23:03:10Z

←Older revision		Revision as of 23:03, 10 May 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5fom is ON HOLD	+	The entry 5fom is ON HOLD until Paper Publication

	Authors: Palencia, A., Liu, R.J., Lukarska, M., Gut, J., Bougdour, A., Touquet, B., Wang, E.D., Alley, M.R.K., Rosenthal, P.J., Hakimi, M.A., Cusack, S.		Authors: Palencia, A., Liu, R.J., Lukarska, M., Gut, J., Bougdour, A., Touquet, B., Wang, E.D., Alley, M.R.K., Rosenthal, P.J., Hakimi, M.A., Cusack, S.

OCA: Protected "5fom" [edit=sysop:move=sysop]

2015-12-02T15:24:44Z

Protected "5fom" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:24, 2 December 2015

OCA: New page: '''Unreleased structure''' The entry 5fom is ON HOLD Authors: Palencia, A., Liu, R.J., Lukarska, M., Gut, J., Bougdour, A., Touquet, B., Wang, E.D., Alley, M.R.K., Rosenthal, P.J., Haki...

2015-12-02T15:24:43Z

New page: '''Unreleased structure''' The entry 5fom is ON HOLD Authors: Palencia, A., Liu, R.J., Lukarska, M., Gut, J., Bougdour, A., Touquet, B., Wang, E.D., Alley, M.R.K., Rosenthal, P.J., Haki...

New page

'''Unreleased structure'''

The entry 5fom is ON HOLD

Authors: Palencia, A., Liu, R.J., Lukarska, M., Gut, J., Bougdour, A., Touquet, B., Wang, E.D., Alley, M.R.K., Rosenthal, P.J., Hakimi, M.A., Cusack, S.

Description: Crystal structure of the Cryptosporidium muris cytosolic leucyl-tRNA synthetase editing domain complex with the adduct AMP-AN6426
[[Category: Unreleased Structures]]
[[Category: Bougdour, A]]
[[Category: Alley, M.R.K]]
[[Category: Cusack, S]]
[[Category: Palencia, A]]
[[Category: Touquet, B]]
[[Category: Wang, E.D]]
[[Category: Rosenthal, P.J]]
[[Category: Liu, R.J]]
[[Category: Lukarska, M]]
[[Category: Gut, J]]
[[Category: Hakimi, M.A]]