5xgq - Revision history

OCA at 08:01, 22 November 2023

OCA — Wed, 22 Nov 2023 08:01:51 GMT

←Older revision		Revision as of 08:01, 22 November 2023
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	==Crystal structure of apo form (free-state) Mycobacterium tuberculosis methionyl-tRNA synthetase==		==Crystal structure of apo form (free-state) Mycobacterium tuberculosis methionyl-tRNA synthetase==
-	<StructureSection load='5xgq' size='340' side='right' caption='[[5xgq]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='5xgq' size='340' side='right'caption='[[5xgq]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xgq]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Mycta Mycta~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XGQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5XGQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xgq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Ra Mycobacterium tuberculosis H37Ra]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5XGQ FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>metG, MRA_1016 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=419947 MYCTA])</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]] 1.899Å</td></tr>
-	~~<tr id='activity'><td class~~="~~sblockLbl~~">~~<b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionine~~-~~-tRNA_ligase Methionine--tRNA ligase]~~, ~~with EC number~~ [~~http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.~~1.~~1.10 6.1.1.10] </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=5xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xgq OCA], [https://pdbe.org/5xgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5xgq RCSB], [https://www.ebi.ac.uk/pdbsum/5xgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5xgq 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=5xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xgq OCA], [~~http~~://pdbe.org/5xgq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5xgq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5xgq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5xgq ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/A5U150_MYCTA A5U150_MYCTA]] Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation.[HAMAP-Rule:MF_01228]	+	[https://www.uniprot.org/uniprot/A5U150_MYCTA A5U150_MYCTA] Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation.[HAMAP-Rule:MF_01228]
	<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 5xgq" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5xgq" 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: ~~Methionine--tRNA ligase~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Mycta~~]]	+	[[Category: Mycobacterium tuberculosis H37Ra]]
-	[[Category: Cui, S]]	+	[[Category: Cui S]]
-	[[Category: Wang, M]]	+	[[Category: Wang M]]
-	[[Category: Wang, W]]	+	[[Category: Wang W]]
-	[[Category: Wojdyla~~, J A]]~~	+	[[Category: Wojdyla JA]]
-	~~[[Category: Anticodon-binding domain of trna]]~~	+
-	~~[[Category: Ligase]]~~	+
-	~~[[Category: Methionyl-trna synthetase]]~~	+
-	~~[[Category: Mycobacterium tuberculosis]]~~	+
-	~~[[Category: Protein translation~~]]	+

OCA at 19:02, 1 August 2018

OCA — Wed, 01 Aug 2018 19:02:50 GMT

←Older revision		Revision as of 19:02, 1 August 2018
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	<StructureSection load='5xgq' size='340' side='right' caption='[[5xgq]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5xgq' size='340' side='right' caption='[[5xgq]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xgq]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XGQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xgq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycta Mycta]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XGQ FirstGlance]. <br>
-	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionine--tRNA_ligase Methionine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.10 6.1.1.10] </span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">metG, MRA_1016 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=419947 MYCTA])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionine--tRNA_ligase Methionine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.10 6.1.1.10] </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=5xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xgq OCA], [http://pdbe.org/5xgq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xgq RCSB], [http://www.ebi.ac.uk/pdbsum/5xgq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xgq 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=5xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xgq OCA], [http://pdbe.org/5xgq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xgq RCSB], [http://www.ebi.ac.uk/pdbsum/5xgq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xgq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/A5U150_MYCTA A5U150_MYCTA]] Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation.[HAMAP-Rule:MF_01228]		[[http://www.uniprot.org/uniprot/A5U150_MYCTA A5U150_MYCTA]] Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation.[HAMAP-Rule:MF_01228]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mycobacterium tuberculosis (MTB) caused 10.4 million cases of tuberculosis and 1.7 million deaths in 2016. The incidence of multidrug-resistant and extensively drug-resistant MTB is becoming an increasing threat to public health and the development of novel anti-MTB drugs is urgently needed. Methionyl-tRNA synthetase (MetRS) is considered to be a valuable drug target. However, structural characterization of M. tuberculosis MetRS (MtMetRS) was lacking for decades, thus hampering drug design. Here, two high-resolution crystal structures of MtMetRS are reported: the free-state structure (apo form; 1.9 A resolution) and a structure with the intermediate product methionyl-adenylate (Met-AMP) bound (2.4 A resolution). It was found that free-state MtMetRS adopts a previously unseen conformation that has never been observed in other MetRS homologues. The pockets for methionine and AMP are not formed in free-state MtMetRS, suggesting that it is in a nonproductive conformation. Combining these findings suggests that MtMetRS employs an induced-fit mechanism in ligand binding. By comparison with the structure of human cytosolic MetRS, additional pockets specific to MtMetRS that could be used for anti-MTB drug design were located.
		+
		+	Structural characterization of free-state and product-state Mycobacterium tuberculosis methionyl-tRNA synthetase reveals an induced-fit ligand-recognition mechanism.,Wang W, Qin B, Wojdyla JA, Wang M, Gao X, Cui S IUCrJ. 2018 Jun 22;5(Pt 4):478-490. doi: 10.1107/S2052252518008217. eCollection, 2018 Jul 1. PMID:30002848<ref>PMID:30002848</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5xgq" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Methionine--tRNA ligase]]		[[Category: Methionine--tRNA ligase]]
		+	[[Category: Mycta]]
	[[Category: Cui, S]]		[[Category: Cui, S]]
	[[Category: Wang, M]]		[[Category: Wang, M]]

OCA at 05:37, 11 July 2018

OCA — Wed, 11 Jul 2018 05:37:04 GMT

←Older revision		Revision as of 05:37, 11 July 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 5xgq is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of apo form (free-state) Mycobacterium tuberculosis methionyl-tRNA synthetase==
-		+	<StructureSection load='5xgq' size='340' side='right' caption='[[5xgq]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~Authors~~: ~~Wang~~, W., ~~Wang~~, M., ~~Wojdyla, J~~.A., ~~Cui, S~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5xgq]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XGQ FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure~~ of ~~apo form~~ (~~free-state~~) ~~Mycobacterium tuberculosis methionyl~~-tRNA ~~synthetase~~	+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionine--tRNA_ligase Methionine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.10 6.1.1.10] </span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xgq OCA], [http://pdbe.org/5xgq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xgq RCSB], [http://www.ebi.ac.uk/pdbsum/5xgq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xgq ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/A5U150_MYCTA A5U150_MYCTA]] Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation.[HAMAP-Rule:MF_01228]
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Methionine--tRNA ligase]]
		+	[[Category: Cui, S]]
	[[Category: Wang, M]]		[[Category: Wang, M]]
-	[[Category: Wojdyla, J.A]]
	[[Category: Wang, W]]		[[Category: Wang, W]]
-	[[Category: ~~Cui~~, S]]	+	[[Category: Wojdyla, J A]]
		+	[[Category: Anticodon-binding domain of trna]]
		+	[[Category: Ligase]]
		+	[[Category: Methionyl-trna synthetase]]
		+	[[Category: Mycobacterium tuberculosis]]
		+	[[Category: Protein translation]]

OCA at 05:27, 4 July 2018

OCA — Wed, 04 Jul 2018 05:27:53 GMT

←Older revision		Revision as of 05:27, 4 July 2018
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	Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S.		Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S.

-	Description: ~~aminoacyl~~-tRNA synthetase ~~from Bacterium~~	+	Description: Crystal structure of apo form (free-state) Mycobacterium tuberculosis methionyl-tRNA synthetase
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Wang, M]]		[[Category: Wang, M]]

OCA at 15:27, 27 September 2017

OCA — Wed, 27 Sep 2017 15:27:37 GMT

←Older revision		Revision as of 15:27, 27 September 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S.		Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S.
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	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Wang, M]]		[[Category: Wang, M]]
-	[[Category: Wang, W]]
	[[Category: Wojdyla, J.A]]		[[Category: Wojdyla, J.A]]
		+	[[Category: Wang, W]]
	[[Category: Cui, S]]		[[Category: Cui, S]]

OCA at 12:27, 24 May 2017

OCA — Wed, 24 May 2017 12:27:56 GMT

←Older revision		Revision as of 12:27, 24 May 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5xgq is ON HOLD ~~until Paper Publication~~	+	The entry 5xgq is ON HOLD

	Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S.		Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S.

OCA at 12:10, 4 May 2017

OCA — Thu, 04 May 2017 12:10:59 GMT

←Older revision		Revision as of 12:10, 4 May 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S.		Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S.

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

OCA — Thu, 27 Apr 2017 13:03:36 GMT

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

←Older revision

Revision as of 13:03, 27 April 2017

OCA: New page: '''Unreleased structure''' The entry 5xgq is ON HOLD Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S. Description: aminoacyl-tRNA synthetase from Bacterium [[Category: Unreleased St...

OCA — Thu, 27 Apr 2017 13:03:35 GMT

New page: '''Unreleased structure''' The entry 5xgq is ON HOLD Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S. Description: aminoacyl-tRNA synthetase from Bacterium [[Category: Unreleased St...

New page

'''Unreleased structure'''

The entry 5xgq is ON HOLD

Authors: Wang, W., Wang, M., Wojdyla, J.A., Cui, S.

Description: aminoacyl-tRNA synthetase from Bacterium
[[Category: Unreleased Structures]]
[[Category: Wang, M]]
[[Category: Wang, W]]
[[Category: Wojdyla, J.A]]
[[Category: Cui, S]]