3md0 - Revision history

OCA at 08:51, 6 September 2023

2023-09-06T08:51:39Z

←Older revision		Revision as of 08:51, 6 September 2023
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	==Crystal structure of arginine/ornithine transport system ATPase from Mycobacterium tuberculosis bound to GDP (a RAS-like GTPase superfamily protein)==		==Crystal structure of arginine/ornithine transport system ATPase from Mycobacterium tuberculosis bound to GDP (a RAS-like GTPase superfamily protein)==
-	<StructureSection load='3md0' size='340' side='right' caption='[[3md0]], [[Resolution\|resolution]] 2.45Å' scene=''>	+	<StructureSection load='3md0' size='340' side='right'caption='[[3md0]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3md0]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Myctu Myctu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3MD0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3md0]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Rv Mycobacterium tuberculosis H37Rv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3MD0 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=GDP:GUANOSINE~~-~~5-DIPHOSPHATE'>GDP</scene>~~, ~~<scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</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]] 2.45Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[3nxs\|3nxs]], [[3p32\|3p32]], [[4gt1\|4gt1]], [[3tk1\|3tk1]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">Rv1496 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU])~~</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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [https://pdbe.org/3md0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [https://www.ebi.ac.uk/pdbsum/3md0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3md0 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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [~~http~~://pdbe.org/3md0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3md0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3md0 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/Y1496_MYCTU Y1496_MYCTU]] Probable GTPase. May also bind and hydrolyze ATP. May function as chaperone (Probable).	+	[https://www.uniprot.org/uniprot/Y1496_MYCTU Y1496_MYCTU] Probable GTPase. May also bind and hydrolyze ATP. May function as chaperone (Probable).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
-	*[[ATPase\|ATPase]]	+	*[[ATPase 3D structures\|ATPase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Myctu~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Structural genomic]]~~	+	[[Category: Mycobacterium tuberculosis H37Rv]]
-	~~[[Category: Allosteric modulator]]~~	+
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Ra]]~~	+
-	~~[[Category: Ras-like gtpase]]~~	+
-	~~[[Category: Ssgcid]]~~	+
-	~~[[Category: Transport protein]]~~	+
-	~~[[Category: Tuberculosis~~]]	+

OCA at 07:13, 9 January 2019

2019-01-09T07:13:44Z

←Older revision		Revision as of 07:13, 9 January 2019
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/md/3md0_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/md/3md0_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 17:32, 9 March 2017

2017-03-09T17:32:27Z

←Older revision		Revision as of 17:32, 9 March 2017
Line 1:		Line 1:
		+
	==Crystal structure of arginine/ornithine transport system ATPase from Mycobacterium tuberculosis bound to GDP (a RAS-like GTPase superfamily protein)==		==Crystal structure of arginine/ornithine transport system ATPase from Mycobacterium tuberculosis bound to GDP (a RAS-like GTPase superfamily protein)==
	<StructureSection load='3md0' size='340' side='right' caption='[[3md0]], [[Resolution\|resolution]] 2.45Å' scene=''>		<StructureSection load='3md0' size='340' side='right' caption='[[3md0]], [[Resolution\|resolution]] 2.45Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nxs\|3nxs]], [[3p32\|3p32]], [[4gt1\|4gt1]], [[3tk1\|3tk1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nxs\|3nxs]], [[3p32\|3p32]], [[4gt1\|4gt1]], [[3tk1\|3tk1]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Rv1496 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Rv1496 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU])</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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [http://www.ebi.ac.uk/pdbsum/3md0 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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [http://pdbe.org/3md0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [http://www.ebi.ac.uk/pdbsum/3md0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3md0 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3md0 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3md0" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 06:45, 3 June 2015

2015-06-03T06:45:27Z

←Older revision		Revision as of 06:45, 3 June 2015
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	<table><tr><td colspan='2'>[[3md0]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MD0 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3md0]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MD0 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nxs\|3nxs]], [[3p32\|3p32]], [[4gt1\|4gt1]], [[3tk1\|3tk1]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Rv1496 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Rv1496 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU])</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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [http://www.ebi.ac.uk/pdbsum/3md0 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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [http://www.ebi.ac.uk/pdbsum/3md0 PDBsum]</span></td></tr>
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	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
-	The ~~genus Mycobacterium comprises major human pathogens such as~~ the ~~causative agent of tuberculosis, Mycobacterium tuberculosis~~ (~~Mtb~~), ~~and many environmental species~~. ~~Tuberculosis claims approximately 1.5 million lives every year, and drug resistant strains~~ of ~~Mtb are rapidly emerging. To aid the development of new tuberculosis drugs, major efforts are currently under way~~ to ~~determine crystal structures of Mtb drug targets and proteins involved~~ in ~~pathogenicity~~. However, ~~a major obstacle to obtaining crystal structures is~~ the ~~generation~~ of ~~well-diffracting crystals. Proteins from thermophiles can have better crystallization and diffraction properties than proteins from mesophiles, but their sequences and structures are often divergent~~. Here, we ~~establish a thermophilic mycobacterial model organism, Mycobacterium thermoresistibile (Mth), for~~ the ~~study of Mtb proteins~~. ~~Mth tolerates higher temperatures than Mtb or other environmental mycobacteria such as~~ M. smegmatis. ~~Mth proteins~~ are ~~on average more soluble than Mtb proteins,~~ and ~~comparison of~~ the crystal ~~structures~~ of ~~two pairs of orthologous proteins reveals nearly identical folds~~, ~~indicating that Mth~~ structures provide ~~good surrogates for Mtb structures. This study introduces~~ a ~~thermophile as a source of protein~~ for ~~the study~~ of ~~a closely related human pathogen and marks a new approach to solving challenging mycobacterial protein structures~~.	+	The methylmalonyl Co-A mutase-associated GTPase MeaB from Methylobacterium extorquens is involved in glyoxylate regulation and required for growth. In humans, mutations in the homolog methylmalonic aciduria associated protein (MMAA) cause methylmalonic aciduria, which is often fatal. The central role of MeaB from bacteria to humans suggests that MeaB is also important in other, pathogenic bacteria such as Mycobacterium tuberculosis. However, the identity of the mycobacterial MeaB homolog is presently unclear. Here, we identify the M. tuberculosis protein Rv1496 and its homologs in M. smegmatis and M. thermoresistibile as MeaB. The crystal structures of all three homologs are highly similar to MeaB and MMAA structures and reveal a characteristic three-domain homodimer with GDP bound in the G domain active site. A structure of Rv1496 obtained from a crystal grown in the presence of GTP exhibited electron density for GDP, suggesting GTPase activity. These structures identify the mycobacterial MeaB and provide a structural framework for therapeutic targeting of M. tuberculosis MeaB.

-	~~Mycobacterium thermoresistibile as a source~~ of ~~thermostable orthologs of Mycobacterium tuberculosis proteins~~.,Edwards TE, ~~Liao R~~, Phan I, Myler PJ, Grundner C ~~Protein Sci~~. ~~2012 Jul~~;21(7):~~1093~~-6. doi: 10.~~1002~~/~~pro.2084~~. Epub ~~2012 May 24~~. PMID:~~22544630~~<ref>PMID:~~22544630~~</ref>	+	Crystal structures of Mycobacterial MeaB and MMAA-like GTPases.,Edwards TE, Baugh L, Bullen J, Baydo RO, Witte P, Thompkins K, Phan IQ, Abendroth J, Clifton MC, Sankaran B, Van Voorhis WC, Myler PJ, Staker BL, Grundner C, Lorimer DD J Struct Funct Genomics. 2015 Jun;16(2):91-9. doi: 10.1007/s10969-015-9197-2., Epub 2015 Apr 2. PMID:25832174<ref>PMID:25832174</ref>

	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

OCA at 06:11, 11 March 2015

2015-03-11T06:11:28Z

←Older revision		Revision as of 06:11, 11 March 2015
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	<StructureSection load='3md0' size='340' side='right' caption='[[3md0]], [[Resolution\|resolution]] 2.45Å' scene=''>		<StructureSection load='3md0' size='340' side='right' caption='[[3md0]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3md0]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mycobacterium_tuberculosis Mycobacterium tuberculosis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MD0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3md0]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MD0 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Rv1496 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~1773 Mycobacterium tuberculosis~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Rv1496 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU])</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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [http://www.ebi.ac.uk/pdbsum/3md0 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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [http://www.ebi.ac.uk/pdbsum/3md0 PDBsum]</span></td></tr>
	</table>		</table>
Line 34:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mycobacterium tuberculosis~~]]	+	[[Category: Myctu]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Allosteric modulator]]		[[Category: Allosteric modulator]]

OCA at 17:13, 25 December 2014

2014-12-25T17:13:40Z

←Older revision		Revision as of 17:13, 25 December 2014
Line 7:		Line 7:
	<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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [http://www.ebi.ac.uk/pdbsum/3md0 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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [http://www.ebi.ac.uk/pdbsum/3md0 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Y1496_MYCTU Y1496_MYCTU]] Probable GTPase. May also bind and hydrolyze ATP. May function as chaperone (Probable).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 09:06, 9 December 2014

2014-12-09T09:06:45Z

←Older revision		Revision as of 09:06, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3md0.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of arginine/ornithine transport system ATPase from Mycobacterium tuberculosis bound to GDP (a RAS-like GTPase superfamily protein)==
		+	<StructureSection load='3md0' size='340' side='right' caption='[[3md0]], [[Resolution\|resolution]] 2.45Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3md0]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MD0 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Rv1496 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1773 Mycobacterium tuberculosis])</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=3md0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3md0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3md0 RCSB], [http://www.ebi.ac.uk/pdbsum/3md0 PDBsum]</span></td></tr>
		+	</table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/md/3md0_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The genus Mycobacterium comprises major human pathogens such as the causative agent of tuberculosis, Mycobacterium tuberculosis (Mtb), and many environmental species. Tuberculosis claims approximately 1.5 million lives every year, and drug resistant strains of Mtb are rapidly emerging. To aid the development of new tuberculosis drugs, major efforts are currently under way to determine crystal structures of Mtb drug targets and proteins involved in pathogenicity. However, a major obstacle to obtaining crystal structures is the generation of well-diffracting crystals. Proteins from thermophiles can have better crystallization and diffraction properties than proteins from mesophiles, but their sequences and structures are often divergent. Here, we establish a thermophilic mycobacterial model organism, Mycobacterium thermoresistibile (Mth), for the study of Mtb proteins. Mth tolerates higher temperatures than Mtb or other environmental mycobacteria such as M. smegmatis. Mth proteins are on average more soluble than Mtb proteins, and comparison of the crystal structures of two pairs of orthologous proteins reveals nearly identical folds, indicating that Mth structures provide good surrogates for Mtb structures. This study introduces a thermophile as a source of protein for the study of a closely related human pathogen and marks a new approach to solving challenging mycobacterial protein structures.

-	~~{{STRUCTURE_3md0\| PDB=3md0 \| SCENE= }}~~	+	Mycobacterium thermoresistibile as a source of thermostable orthologs of Mycobacterium tuberculosis proteins.,Edwards TE, Liao R, Phan I, Myler PJ, Grundner C Protein Sci. 2012 Jul;21(7):1093-6. doi: 10.1002/pro.2084. Epub 2012 May 24. PMID:22544630<ref>PMID:22544630</ref>

-	~~===Crystal structure of arginine~~/~~ornithine transport system ATPase from Mycobacterium tuberculosis bound to GDP (~~a ~~RAS-like GTPase superfamily protein)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_22544630}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3md0]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA].~~	+

	==See Also==		==See Also==
	*[[ATPase\|ATPase]]		*[[ATPase\|ATPase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:022544630<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
-	[[Category: ~~SSGCID, Seattle~~ Structural ~~Genomics Center for Infectious Disease.~~]]	+	[[Category: Structural genomic]]
	[[Category: Allosteric modulator]]		[[Category: Allosteric modulator]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
Line 22:		Line 39:
	[[Category: Ra]]		[[Category: Ra]]
	[[Category: Ras-like gtpase]]		[[Category: Ras-like gtpase]]
-	[[Category: Seattle structural genomics center for infectious disease]]
	[[Category: Ssgcid]]		[[Category: Ssgcid]]
	[[Category: Transport protein]]		[[Category: Transport protein]]
	[[Category: Tuberculosis]]		[[Category: Tuberculosis]]

OCA at 19:19, 20 October 2012

2012-10-20T19:19:39Z

←Older revision		Revision as of 19:19, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3md0]] is a 1 chain structure ~~of [[ATPase]]~~ with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA].	+	[[3md0]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MD0 OCA].

	==See Also==		==See Also==

OCA at 06:24, 19 September 2012

2012-09-19T06:24:28Z

←Older revision		Revision as of 06:24, 19 September 2012
Line 5:		Line 5:
	===Crystal structure of arginine/ornithine transport system ATPase from Mycobacterium tuberculosis bound to GDP (a RAS-like GTPase superfamily protein)===		===Crystal structure of arginine/ornithine transport system ATPase from Mycobacterium tuberculosis bound to GDP (a RAS-like GTPase superfamily protein)===

		+	{{ABSTRACT_PUBMED_22544630}}

	==About this Structure==		==About this Structure==
Line 11:		Line 12:
	==See Also==		==See Also==
	*[[ATPase\|ATPase]]		*[[ATPase\|ATPase]]
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022544630</ref><references group="xtra"/>
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
	[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]		[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]

OCA at 06:59, 27 July 2012

2012-07-27T06:59:36Z

←Older revision		Revision as of 06:59, 27 July 2012
Line 1:		Line 1:
	[[Image:3md0.png\|left\|200px]]		[[Image:3md0.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3md0", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3md0\| PDB=3md0 \| SCENE= }}		{{STRUCTURE_3md0\| PDB=3md0 \| SCENE= }}

Line 16:		Line 10:

	==See Also==		==See Also==
-	*[[ATPase]]	+	*[[ATPase\|ATPase]]
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
	[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]		[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]