3ckj - Revision history

OCA at 09:36, 21 February 2024

OCA — Wed, 21 Feb 2024 09:36:11 GMT

←Older revision		Revision as of 09:36, 21 February 2024
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	<StructureSection load='3ckj' size='340' side='right'caption='[[3ckj]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3ckj' size='340' side='right'caption='[[3ckj]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Mycobacterium_paratuberculosis~~ Mycobacterium paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_avium_subsp._paratuberculosis_K-10 Mycobacterium avium subsp. paratuberculosis K-10]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</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]] 1.8Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [https://pdbe.org/3ckj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [https://www.ebi.ac.uk/pdbsum/3ckj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ckj 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=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [https://pdbe.org/3ckj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [https://www.ebi.ac.uk/pdbsum/3ckj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ckj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/GPGS_MYCPA GPGS_MYCPA]] Involved in the biosynthesis of methylglucose lipopolysaccharides (MGLPs). Catalyzes the condensation of UDP-glucose and 3-phospho-glycerate (3-PGA) to yield glucosyl-3-phosphoglycerate (GPG). Although UDP-glucose is the natural donor sugar, GpgS can also use UDP-GalNAc, UDPGlcNAc, UDP-alpha-L-arabinose, UDP-Gal, UDP-Glc, UDP-alpha-Dglucuronic acid, and UDP-alpha-D-xylose as donor substrates.<ref>PMID:18667419</ref>	+	[https://www.uniprot.org/uniprot/GPGS_MYCPA GPGS_MYCPA] Involved in the biosynthesis of methylglucose lipopolysaccharides (MGLPs). Catalyzes the condensation of UDP-glucose and 3-phospho-glycerate (3-PGA) to yield glucosyl-3-phosphoglycerate (GPG). Although UDP-glucose is the natural donor sugar, GpgS can also use UDP-GalNAc, UDPGlcNAc, UDP-alpha-L-arabinose, UDP-Gal, UDP-Glc, UDP-alpha-Dglucuronic acid, and UDP-alpha-D-xylose as donor substrates.<ref>PMID:18667419</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=3ckj 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=3ckj ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Glycosyltransferases (GTs) are a large and ubiquitous family of enzymes that specifically transfer sugar moieties to a range of substrates. Mycobacterium tuberculosis contains a large number of GTs, many of which are implicated in cell wall synthesis, yet the majority of these GTs remain poorly characterized. Here, we report the high resolution crystal structures of an essential GT (MAP2569c) from Mycobacterium avium subsp. paratuberculosis (a close homologue of Rv1208 from M. tuberculosis) in its apo- and ligand-bound forms. The structure adopted the GT-A fold and possessed the characteristic DXD motif that coordinated an Mn(2+) ion. Atypical of most GTs characterized to date, MAP2569c exhibited specificity toward the donor substrate, UDP-glucose. The structure of this ligated complex revealed an induced fit binding mechanism and provided a basis for this unique specificity. Collectively, the structural features suggested that MAP2569c may adopt a "retaining" enzymatic mechanism, which has implications for the classification of other GTs in this large superfamily.
-
-	Crystal structure of a UDP-glucose-specific glycosyltransferase from a Mycobacterium species.,Fulton Z, McAlister A, Wilce MC, Brammananth R, Zaker-Tabrizi L, Perugini MA, Bottomley SP, Coppel RL, Crellin PK, Rossjohn J, Beddoe T J Biol Chem. 2008 Oct 10;283(41):27881-90. Epub 2008 Jul 30. PMID:18667419<ref>PMID:18667419</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3ckj" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Mycobacterium paratuberculosis]]	+	[[Category: Mycobacterium avium subsp. paratuberculosis K-10]]
-	[[Category: Marland, Z]]	+	[[Category: Marland Z]]
-	[[Category: Rossjohn, J]]	+	[[Category: Rossjohn J]]
-	~~[[Category: Mycobacteria]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 07:59, 27 January 2022

OCA — Thu, 27 Jan 2022 07:59:33 GMT

←Older revision		Revision as of 07:59, 27 January 2022
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	<StructureSection load='3ckj' size='340' side='right'caption='[[3ckj]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3ckj' size='340' side='right'caption='[[3ckj]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Mycobacterium_paratuberculosis Mycobacterium paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_paratuberculosis Mycobacterium paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</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=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</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">[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</div></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=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [~~http~~://pdbe.org/3ckj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3ckj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3ckj 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=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [https://pdbe.org/3ckj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [https://www.ebi.ac.uk/pdbsum/3ckj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ckj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/GPGS_MYCPA GPGS_MYCPA]] Involved in the biosynthesis of methylglucose lipopolysaccharides (MGLPs). Catalyzes the condensation of UDP-glucose and 3-phospho-glycerate (3-PGA) to yield glucosyl-3-phosphoglycerate (GPG). Although UDP-glucose is the natural donor sugar, GpgS can also use UDP-GalNAc, UDPGlcNAc, UDP-alpha-L-arabinose, UDP-Gal, UDP-Glc, UDP-alpha-Dglucuronic acid, and UDP-alpha-D-xylose as donor substrates.<ref>PMID:18667419</ref>	+	[[https://www.uniprot.org/uniprot/GPGS_MYCPA GPGS_MYCPA]] Involved in the biosynthesis of methylglucose lipopolysaccharides (MGLPs). Catalyzes the condensation of UDP-glucose and 3-phospho-glycerate (3-PGA) to yield glucosyl-3-phosphoglycerate (GPG). Although UDP-glucose is the natural donor sugar, GpgS can also use UDP-GalNAc, UDPGlcNAc, UDP-alpha-L-arabinose, UDP-Gal, UDP-Glc, UDP-alpha-Dglucuronic acid, and UDP-alpha-D-xylose as donor substrates.<ref>PMID:18667419</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:31, 31 July 2019

OCA — Wed, 31 Jul 2019 07:31:26 GMT

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

	==Crystal Structure of a Mycobacterial Protein==		==Crystal Structure of a Mycobacterial Protein==
-	<StructureSection load='3ckj' size='340' side='right' caption='[[3ckj]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='3ckj' size='340' side='right'caption='[[3ckj]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_paratuberculosis Mycobacterium paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_paratuberculosis Mycobacterium paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ck/3ckj_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ck/3ckj_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>
Line 33:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Mycobacterium paratuberculosis]]		[[Category: Mycobacterium paratuberculosis]]
	[[Category: Marland, Z]]		[[Category: Marland, Z]]

OCA at 08:29, 25 October 2017

OCA — Wed, 25 Oct 2017 08:29:23 GMT

←Older revision		Revision as of 08:29, 25 October 2017
Line 1:		Line 1:
		+
	==Crystal Structure of a Mycobacterial Protein==		==Crystal Structure of a Mycobacterial Protein==
	<StructureSection load='3ckj' size='340' side='right' caption='[[3ckj]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3ckj' size='340' side='right' caption='[[3ckj]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mycobacterium_avium_subsp._paratuberculosis~~ Mycobacterium ~~avium subsp.~~ paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_paratuberculosis Mycobacterium paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</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"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</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">[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</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=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [http://pdbe.org/3ckj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [http://www.ebi.ac.uk/pdbsum/3ckj 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=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [http://pdbe.org/3ckj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [http://www.ebi.ac.uk/pdbsum/3ckj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ckj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Mycobacterium ~~avium subsp.~~ paratuberculosis]]	+	[[Category: Mycobacterium paratuberculosis]]
	[[Category: Marland, Z]]		[[Category: Marland, Z]]
	[[Category: Rossjohn, J]]		[[Category: Rossjohn, J]]
	[[Category: Mycobacteria]]		[[Category: Mycobacteria]]
	[[Category: Unknown function]]		[[Category: Unknown function]]

OCA at 20:38, 7 February 2016

OCA — Sun, 07 Feb 2016 20:38:58 GMT

←Older revision		Revision as of 20:38, 7 February 2016
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</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"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</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">[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</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=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [http://www.ebi.ac.uk/pdbsum/3ckj 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=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [http://pdbe.org/3ckj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [http://www.ebi.ac.uk/pdbsum/3ckj PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~Q73WU1_MYCPA Q73WU1_MYCPA~~]] Involved in the biosynthesis of methylglucose lipopolysaccharides (MGLPs). Catalyzes the condensation of UDP-glucose and 3-phospho-glycerate (3-PGA) to yield glucosyl-3-phosphoglycerate (GPG). Although UDP-glucose is the natural donor sugar, GpgS can also use UDP-GalNAc, UDPGlcNAc, UDP-alpha-L-arabinose, UDP-Gal, UDP-Glc, UDP-alpha-Dglucuronic acid, and UDP-alpha-D-xylose as donor substrates.	+	[[http://www.uniprot.org/uniprot/GPGS_MYCPA GPGS_MYCPA]] Involved in the biosynthesis of methylglucose lipopolysaccharides (MGLPs). Catalyzes the condensation of UDP-glucose and 3-phospho-glycerate (3-PGA) to yield glucosyl-3-phosphoglycerate (GPG). Although UDP-glucose is the natural donor sugar, GpgS can also use UDP-GalNAc, UDPGlcNAc, UDP-alpha-L-arabinose, UDP-Gal, UDP-Glc, UDP-alpha-Dglucuronic acid, and UDP-alpha-D-xylose as donor substrates.<ref>PMID:18667419</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 17:		Line 17:
	<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=3ckj ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	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 3ckj" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:07, 24 December 2014

OCA — Wed, 24 Dec 2014 18:07:10 GMT

←Older revision		Revision as of 18:07, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_avium_subsp._paratuberculosis Mycobacterium avium subsp. paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_avium_subsp._paratuberculosis Mycobacterium avium subsp. paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [http://www.ebi.ac.uk/pdbsum/3ckj 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=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [http://www.ebi.ac.uk/pdbsum/3ckj PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Q73WU1_MYCPA Q73WU1_MYCPA]] Involved in the biosynthesis of methylglucose lipopolysaccharides (MGLPs). Catalyzes the condensation of UDP-glucose and 3-phospho-glycerate (3-PGA) to yield glucosyl-3-phosphoglycerate (GPG). Although UDP-glucose is the natural donor sugar, GpgS can also use UDP-GalNAc, UDPGlcNAc, UDP-alpha-L-arabinose, UDP-Gal, UDP-Glc, UDP-alpha-Dglucuronic acid, and UDP-alpha-D-xylose as donor substrates.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Mycobacterium avium subsp. paratuberculosis]]		[[Category: Mycobacterium avium subsp. paratuberculosis]]
-	[[Category: Marland, Z.]]	+	[[Category: Marland, Z]]
-	[[Category: Rossjohn, J.]]	+	[[Category: Rossjohn, J]]
	[[Category: Mycobacteria]]		[[Category: Mycobacteria]]
	[[Category: Unknown function]]		[[Category: Unknown function]]

OCA at 21:04, 2 October 2014

OCA — Thu, 02 Oct 2014 21:04:12 GMT

←Older revision		Revision as of 21:04, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~3ckj.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of a Mycobacterial Protein==
		+	<StructureSection load='3ckj' size='340' side='right' caption='[[3ckj]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3ckj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_avium_subsp._paratuberculosis Mycobacterium avium subsp. paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CKJ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ckn\|3ckn]], [[3cko\|3cko]], [[3ckq\|3ckq]], [[3ckv\|3ckv]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ckj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ckj RCSB], [http://www.ebi.ac.uk/pdbsum/3ckj 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/ck/3ckj_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 ==
		+	Glycosyltransferases (GTs) are a large and ubiquitous family of enzymes that specifically transfer sugar moieties to a range of substrates. Mycobacterium tuberculosis contains a large number of GTs, many of which are implicated in cell wall synthesis, yet the majority of these GTs remain poorly characterized. Here, we report the high resolution crystal structures of an essential GT (MAP2569c) from Mycobacterium avium subsp. paratuberculosis (a close homologue of Rv1208 from M. tuberculosis) in its apo- and ligand-bound forms. The structure adopted the GT-A fold and possessed the characteristic DXD motif that coordinated an Mn(2+) ion. Atypical of most GTs characterized to date, MAP2569c exhibited specificity toward the donor substrate, UDP-glucose. The structure of this ligated complex revealed an induced fit binding mechanism and provided a basis for this unique specificity. Collectively, the structural features suggested that MAP2569c may adopt a "retaining" enzymatic mechanism, which has implications for the classification of other GTs in this large superfamily.

-	~~{{STRUCTURE_3ckj\| PDB=3ckj \| SCENE= }}~~	+	Crystal structure of a UDP-glucose-specific glycosyltransferase from a Mycobacterium species.,Fulton Z, McAlister A, Wilce MC, Brammananth R, Zaker-Tabrizi L, Perugini MA, Bottomley SP, Coppel RL, Crellin PK, Rossjohn J, Beddoe T J Biol Chem. 2008 Oct 10;283(41):27881-90. Epub 2008 Jul 30. PMID:18667419<ref>PMID:18667419</ref>

-	~~===Crystal Structure~~ of ~~a Mycobacterial Protein===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18667419}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3ckj]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mycobacterium_avium_subsp~~.~~_paratuberculosis Mycobacterium avium subsp. paratuberculosis]. Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018667419<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Mycobacterium avium subsp. paratuberculosis]]		[[Category: Mycobacterium avium subsp. paratuberculosis]]
	[[Category: Marland, Z.]]		[[Category: Marland, Z.]]

OCA: Protected "3ckj" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 18:41:21 GMT

Protected "3ckj" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:41, 7 January 2013

OCA at 18:41, 7 January 2013

OCA — Mon, 07 Jan 2013 18:41:19 GMT

←Older revision		Revision as of 18:41, 7 January 2013
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-	{{Seed}}
	[[Image:3ckj.png\|left\|200px]]		[[Image:3ckj.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3ckj", 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_3ckj\| PDB=3ckj \| SCENE= }}		{{STRUCTURE_3ckj\| PDB=3ckj \| SCENE= }}

	===Crystal Structure of a Mycobacterial Protein===		===Crystal Structure of a Mycobacterial Protein===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18667419}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18667419 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18667419}}		{{ABSTRACT_PUBMED_18667419}}

	==About this Structure==		==About this Structure==
-	~~3CKJ~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_avium_subsp._paratuberculosis Mycobacterium avium subsp. paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA].	+	[[3ckj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_avium_subsp._paratuberculosis Mycobacterium avium subsp. paratuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKJ OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18667419~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018667419</ref><references group="xtra"/>
	[[Category: Mycobacterium avium subsp. paratuberculosis]]		[[Category: Mycobacterium avium subsp. paratuberculosis]]
	[[Category: Marland, Z.]]		[[Category: Marland, Z.]]
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	[[Category: Mycobacteria]]		[[Category: Mycobacteria]]
	[[Category: Unknown function]]		[[Category: Unknown function]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 16:21:40 2009''

OCA at 14:21, 16 February 2009

OCA — Mon, 16 Feb 2009 14:21:42 GMT

←Older revision		Revision as of 14:21, 16 February 2009
Line 23:		Line 23:

	==Reference==		==Reference==
-	Crystal structure of a UDP-glucose-specific glycosyltransferase from a Mycobacterium species., Fulton Z, McAlister A, Wilce MC, Brammananth R, Zaker-Tabrizi L, Perugini MA, Bottomley SP, Coppel RL, Crellin PK, Rossjohn J, Beddoe T, J Biol Chem. 2008 Oct 10;283(41):27881-90. Epub 2008 Jul 30. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18667419 18667419]~~	+	<ref group="xtra">PMID:18667419</ref><references group="xtra"/>
	[[Category: Mycobacterium avium subsp. paratuberculosis]]		[[Category: Mycobacterium avium subsp. paratuberculosis]]
	[[Category: Marland, Z.]]		[[Category: Marland, Z.]]
Line 30:		Line 30:
	[[Category: Unknown function]]		[[Category: Unknown function]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Nov 20 07~~:54:~~50 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 16:21:40 2009''