2rix - Revision history

OCA at 09:22, 21 February 2024

2024-02-21T09:22:42Z

←Older revision		Revision as of 09:22, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='2rix' size='340' side='right'caption='[[2rix]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='2rix' size='340' side='right'caption='[[2rix]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2rix]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2RIX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2rix]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2RIX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>~~, ~~<scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</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]] 1.75Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[2rit\|2rit]], [[2riy\|2riy]], [[2riz\|2riz]], [[2rj0\|2rj0]], [[2rj1\|2rj1]], [[2rj4\|2rj4]], [[2rj5\|2rj5]], [[2rj6\|2rj6]], [[2rj7\|2rj7]], [[2rj8\|2rj8]], [[2rj9\|2rj9]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b></td><td class="sblockDat">ABO~~ (~~[https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]~~)~~</td~~></tr>	+
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>[https://en.wikipedia.org/wiki/Fucosylgalactoside_3-alpha-galactosyltransferase Fucosylgalactoside 3-alpha-galactosyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.37 2.4.1.37] </~~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=2rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rix OCA], [https://pdbe.org/2rix PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2rix RCSB], [https://www.ebi.ac.uk/pdbsum/2rix PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2rix 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=2rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rix OCA], [https://pdbe.org/2rix PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2rix RCSB], [https://www.ebi.ac.uk/pdbsum/2rix PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2rix ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/BGAT_HUMAN BGAT_HUMAN]] This protein is the basis of the ABO blood group system. The histo-blood group ABO involves three carbohydrate antigens: A, B, and H. A, B, and AB individuals express a glycosyltransferase activity that converts the H antigen to the A antigen (by addition of UDP-GalNAc) or to the B antigen (by addition of UDP-Gal), whereas O individuals lack such activity.	+	[https://www.uniprot.org/uniprot/BGAT_HUMAN BGAT_HUMAN] This protein is the basis of the ABO blood group system. The histo-blood group ABO involves three carbohydrate antigens: A, B, and H. A, B, and AB individuals express a glycosyltransferase activity that converts the H antigen to the A antigen (by addition of UDP-GalNAc) or to the B antigen (by addition of UDP-Gal), whereas O individuals lack such activity.
	== 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=2rix 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=2rix ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The final step in the enzymatic synthesis of the ABO(H) blood group A and B antigens is catalyzed by two closely related glycosyltransferases, an alpha-(1-->3)-N-acetylgalactosaminyltransferase (GTA) and an alpha-(1-->3)-galactosyltransferase (GTB). Of their 354 amino acid residues, GTA and GTB differ by only four "critical" residues. High resolution structures for GTB and the GTA/GTB chimeric enzymes GTB/G176R and GTB/G176R/G235S bound to a panel of donor and acceptor analog substrates reveal "open," "semi-closed," and "closed" conformations as the enzymes go from the unliganded to the liganded states. In the open form the internal polypeptide loop (amino acid residues 177-195) adjacent to the active site in the unliganded or H antigen-bound enzymes is composed of two alpha-helices spanning Arg(180)-Met(186) and Arg(188)-Asp(194), respectively. The semi-closed and closed forms of the enzymes are generated by binding of UDP or of UDP and H antigen analogs, respectively, and show that these helices merge to form a single distorted helical structure with alternating alpha-3(10)-alpha character that partially occludes the active site. The closed form is distinguished from the semi-closed form by the ordering of the final nine C-terminal residues through the formation of hydrogen bonds to both UDP and H antigen analogs. The semi-closed forms for various mutants generally show significantly more disorder than the open forms, whereas the closed forms display little or no disorder depending strongly on the identity of residue 176. Finally, the use of synthetic analogs reveals how H antigen acceptor binding can be critical in stabilizing the closed conformation. These structures demonstrate a delicately balanced substrate recognition mechanism and give insight on critical aspects of donor and acceptor specificity, on the order of substrate binding, and on the requirements for catalysis.
-
-	ABO(H) blood group A and B glycosyltransferases recognize substrate via specific conformational changes.,Alfaro JA, Zheng RB, Persson M, Letts JA, Polakowski R, Bai Y, Borisova SN, Seto NO, Lowary TL, Palcic MM, Evans SV J Biol Chem. 2008 Apr 11;283(15):10097-108. Epub 2008 Jan 11. PMID:18192272<ref>PMID:18192272</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2rix" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Glycosyltransferase 3D structures\|Glycosyltransferase 3D structures]]		*[[Glycosyltransferase 3D structures\|Glycosyltransferase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Fucosylgalactoside 3-alpha-galactosyltransferase]]~~	+	[[Category: Homo sapiens]]
-	~~[[Category: Human~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Alfaro~~, J A~~]]	+	[[Category: Alfaro JA]]
-	[[Category: Evans~~, S V]]~~	+	[[Category: Evans SV]]
-	~~[[Category: Blood group antigen]]~~	+
-	~~[[Category: Glycoprotein]]~~	+
-	~~[[Category: Glycosyltransferase]]~~	+
-	~~[[Category: Golgi apparatus]]~~	+
-	~~[[Category: Gtb abo rossman fold bbbb unliganded]]~~	+
-	~~[[Category: Manganese]]~~	+
-	~~[[Category: Membrane]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Secreted]]~~	+
-	~~[[Category: Signal-anchor]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Transmembrane~~]]	+

OCA at 04:27, 2 July 2021

2021-07-02T04:27:05Z

←Older revision		Revision as of 04:27, 2 July 2021
Line 1:		Line 1:

	==B-specific-1,3-galactosyltransferase)(GTB) + UDP==		==B-specific-1,3-galactosyltransferase)(GTB) + UDP==
-	<StructureSection load='2rix' size='340' side='right' caption='[[2rix]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='2rix' size='340' side='right'caption='[[2rix]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2rix]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2RIX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2rix]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2RIX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rit\|2rit]], [[2riy\|2riy]], [[2riz\|2riz]], [[2rj0\|2rj0]], [[2rj1\|2rj1]], [[2rj4\|2rj4]], [[2rj5\|2rj5]], [[2rj6\|2rj6]], [[2rj7\|2rj7]], [[2rj8\|2rj8]], [[2rj9\|2rj9]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2rit\|2rit]], [[2riy\|2riy]], [[2riz\|2riz]], [[2rj0\|2rj0]], [[2rj1\|2rj1]], [[2rj4\|2rj4]], [[2rj5\|2rj5]], [[2rj6\|2rj6]], [[2rj7\|2rj7]], [[2rj8\|2rj8]], [[2rj9\|2rj9]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ABO ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ABO ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Fucosylgalactoside_3-alpha-galactosyltransferase Fucosylgalactoside 3-alpha-galactosyltransferase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.37 2.4.1.37] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Fucosylgalactoside_3-alpha-galactosyltransferase Fucosylgalactoside 3-alpha-galactosyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.37 2.4.1.37] </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=2rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rix OCA], [~~http~~://pdbe.org/2rix PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2rix RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2rix PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2rix 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=2rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rix OCA], [https://pdbe.org/2rix PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2rix RCSB], [https://www.ebi.ac.uk/pdbsum/2rix PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2rix ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/BGAT_HUMAN BGAT_HUMAN]] This protein is the basis of the ABO blood group system. The histo-blood group ABO involves three carbohydrate antigens: A, B, and H. A, B, and AB individuals express a glycosyltransferase activity that converts the H antigen to the A antigen (by addition of UDP-GalNAc) or to the B antigen (by addition of UDP-Gal), whereas O individuals lack such activity.	+	[[https://www.uniprot.org/uniprot/BGAT_HUMAN BGAT_HUMAN]] This protein is the basis of the ABO blood group system. The histo-blood group ABO involves three carbohydrate antigens: A, B, and H. A, B, and AB individuals express a glycosyltransferase activity that converts the H antigen to the A antigen (by addition of UDP-GalNAc) or to the B antigen (by addition of UDP-Gal), whereas O individuals lack such activity.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:

	==See Also==		==See Also==
-	*[[Glycosyltransferase\|Glycosyltransferase]]	+	*[[Glycosyltransferase 3D structures\|Glycosyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]		[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Alfaro, J A]]		[[Category: Alfaro, J A]]
	[[Category: Evans, S V]]		[[Category: Evans, S V]]

OCA at 05:35, 8 March 2018

2018-03-08T05:35:43Z

←Older revision		Revision as of 05:35, 8 March 2018
Line 16:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ri/2rix_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ri/2rix_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 15:13, 5 August 2016

2016-08-05T15:13:57Z

←Older revision		Revision as of 15:13, 5 August 2016
Line 1:		Line 1:
		+
	==B-specific-1,3-galactosyltransferase)(GTB) + UDP==		==B-specific-1,3-galactosyltransferase)(GTB) + UDP==
	<StructureSection load='2rix' size='340' side='right' caption='[[2rix]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='2rix' size='340' side='right' caption='[[2rix]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2rix]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RIX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2rix]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RIX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rit\|2rit]], [[2riy\|2riy]], [[2riz\|2riz]], [[2rj0\|2rj0]], [[2rj1\|2rj1]], [[2rj4\|2rj4]], [[2rj5\|2rj5]], [[2rj6\|2rj6]], [[2rj7\|2rj7]], [[2rj8\|2rj8]], [[2rj9\|2rj9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rit\|2rit]], [[2riy\|2riy]], [[2riz\|2riz]], [[2rj0\|2rj0]], [[2rj1\|2rj1]], [[2rj4\|2rj4]], [[2rj5\|2rj5]], [[2rj6\|2rj6]], [[2rj7\|2rj7]], [[2rj8\|2rj8]], [[2rj9\|2rj9]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ABO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ABO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Fucosylgalactoside_3-alpha-galactosyltransferase Fucosylgalactoside 3-alpha-galactosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.37 2.4.1.37] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Fucosylgalactoside_3-alpha-galactosyltransferase Fucosylgalactoside 3-alpha-galactosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.37 2.4.1.37] </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=2rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rix OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2rix RCSB], [http://www.ebi.ac.uk/pdbsum/2rix 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=2rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rix OCA], [http://pdbe.org/2rix PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2rix RCSB], [http://www.ebi.ac.uk/pdbsum/2rix PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2rix ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	<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=2rix ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 30:
	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 2rix" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 39:
	</StructureSection>		</StructureSection>
	[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]		[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Alfaro, J A]]		[[Category: Alfaro, J A]]
	[[Category: Evans, S V]]		[[Category: Evans, S V]]

OCA at 19:51, 25 December 2014

2014-12-25T19:51:30Z

←Older revision		Revision as of 19:51, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2rix]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RIX FirstGlance]. <br>		<table><tr><td colspan='2'>[[2rix]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RIX FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rit\|2rit]], [[2riy\|2riy]], [[2riz\|2riz]], [[2rj0\|2rj0]], [[2rj1\|2rj1]], [[2rj4\|2rj4]], [[2rj5\|2rj5]], [[2rj6\|2rj6]], [[2rj7\|2rj7]], [[2rj8\|2rj8]], [[2rj9\|2rj9]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rit\|2rit]], [[2riy\|2riy]], [[2riz\|2riz]], [[2rj0\|2rj0]], [[2rj1\|2rj1]], [[2rj4\|2rj4]], [[2rj5\|2rj5]], [[2rj6\|2rj6]], [[2rj7\|2rj7]], [[2rj8\|2rj8]], [[2rj9\|2rj9]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ABO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ABO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Fucosylgalactoside_3-alpha-galactosyltransferase Fucosylgalactoside 3-alpha-galactosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.37 2.4.1.37] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Fucosylgalactoside_3-alpha-galactosyltransferase Fucosylgalactoside 3-alpha-galactosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.37 2.4.1.37] </span></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=2rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rix OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2rix RCSB], [http://www.ebi.ac.uk/pdbsum/2rix 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=2rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rix OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2rix RCSB], [http://www.ebi.ac.uk/pdbsum/2rix PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BGAT_HUMAN BGAT_HUMAN]] This protein is the basis of the ABO blood group system. The histo-blood group ABO involves three carbohydrate antigens: A, B, and H. A, B, and AB individuals express a glycosyltransferase activity that converts the H antigen to the A antigen (by addition of UDP-GalNAc) or to the B antigen (by addition of UDP-Gal), whereas O individuals lack such activity.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]		[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Alfaro, J A.]]	+	[[Category: Alfaro, J A]]
-	[[Category: Evans, S V.]]	+	[[Category: Evans, S V]]
	[[Category: Blood group antigen]]		[[Category: Blood group antigen]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]

OCA at 07:59, 29 September 2014

2014-09-29T07:59:10Z

←Older revision		Revision as of 07:59, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2rix.~~png~~\|~~left~~\|200px]]	+	==B-specific-1,3-galactosyltransferase)(GTB) + UDP==
		+	<StructureSection load='2rix' size='340' side='right' caption='[[2rix]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2rix]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RIX FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rit\|2rit]], [[2riy\|2riy]], [[2riz\|2riz]], [[2rj0\|2rj0]], [[2rj1\|2rj1]], [[2rj4\|2rj4]], [[2rj5\|2rj5]], [[2rj6\|2rj6]], [[2rj7\|2rj7]], [[2rj8\|2rj8]], [[2rj9\|2rj9]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ABO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Fucosylgalactoside_3-alpha-galactosyltransferase Fucosylgalactoside 3-alpha-galactosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.37 2.4.1.37] </span></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=2rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rix OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2rix RCSB], [http://www.ebi.ac.uk/pdbsum/2rix 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/ri/2rix_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 final step in the enzymatic synthesis of the ABO(H) blood group A and B antigens is catalyzed by two closely related glycosyltransferases, an alpha-(1-->3)-N-acetylgalactosaminyltransferase (GTA) and an alpha-(1-->3)-galactosyltransferase (GTB). Of their 354 amino acid residues, GTA and GTB differ by only four "critical" residues. High resolution structures for GTB and the GTA/GTB chimeric enzymes GTB/G176R and GTB/G176R/G235S bound to a panel of donor and acceptor analog substrates reveal "open," "semi-closed," and "closed" conformations as the enzymes go from the unliganded to the liganded states. In the open form the internal polypeptide loop (amino acid residues 177-195) adjacent to the active site in the unliganded or H antigen-bound enzymes is composed of two alpha-helices spanning Arg(180)-Met(186) and Arg(188)-Asp(194), respectively. The semi-closed and closed forms of the enzymes are generated by binding of UDP or of UDP and H antigen analogs, respectively, and show that these helices merge to form a single distorted helical structure with alternating alpha-3(10)-alpha character that partially occludes the active site. The closed form is distinguished from the semi-closed form by the ordering of the final nine C-terminal residues through the formation of hydrogen bonds to both UDP and H antigen analogs. The semi-closed forms for various mutants generally show significantly more disorder than the open forms, whereas the closed forms display little or no disorder depending strongly on the identity of residue 176. Finally, the use of synthetic analogs reveals how H antigen acceptor binding can be critical in stabilizing the closed conformation. These structures demonstrate a delicately balanced substrate recognition mechanism and give insight on critical aspects of donor and acceptor specificity, on the order of substrate binding, and on the requirements for catalysis.

-	~~{{STRUCTURE_2rix\| PDB=2rix \| SCENE= }}~~	+	ABO(H) blood group A and B glycosyltransferases recognize substrate via specific conformational changes.,Alfaro JA, Zheng RB, Persson M, Letts JA, Polakowski R, Bai Y, Borisova SN, Seto NO, Lowary TL, Palcic MM, Evans SV J Biol Chem. 2008 Apr 11;283(15):10097-108. Epub 2008 Jan 11. PMID:18192272<ref>PMID:18192272</ref>

-	~~===B-specific-1~~,~~3-galactosyltransferase)(GTB) + UDP===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18192272}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2rix]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Homo_sapiens Homo sapiens]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA].~~	+

	==See Also==		==See Also==
-	*[[~~Galactosyltransferase~~\|~~Galactosyltransferase~~]]	+	*[[Glycosyltransferase\|Glycosyltransferase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018192272<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]		[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]

OCA at 20:46, 20 October 2012

2012-10-20T20:46:25Z

←Older revision		Revision as of 20:46, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2rix]] is a 1 chain structure ~~of [[Galactosyltransferase]]~~ with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA].	+	[[2rix]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA].

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

OCA: Protected "2rix" [edit=sysop:move=sysop]

2012-07-27T11:34:44Z

Protected "2rix" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:34, 27 July 2012

OCA at 11:34, 27 July 2012

2012-07-27T11:34:41Z

←Older revision		Revision as of 11:34, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2rix.png\|left\|200px]]		[[Image:2rix.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2rix", 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_2rix\| PDB=2rix \| SCENE= }}		{{STRUCTURE_2rix\| PDB=2rix \| SCENE= }}

	===B-specific-1,3-galactosyltransferase)(GTB) + UDP===		===B-specific-1,3-galactosyltransferase)(GTB) + UDP===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18192272}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18192272 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18192272}}		{{ABSTRACT_PUBMED_18192272}}
-
-	==Disease==
-	Known disease associated with this structure: Blood group, ABO system OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=110300 110300]]

	==About this Structure==		==About this Structure==
-	~~2RIX~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA].	+	[[2rix]] is a 1 chain structure of [[Galactosyltransferase]] with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA].
		+
		+	==See Also==
		+	*[[Galactosyltransferase\|Galactosyltransferase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18192272~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018192272</ref><references group="xtra"/>
	[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]		[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
Line 39:		Line 27:
	[[Category: Membrane]]		[[Category: Membrane]]
	[[Category: Metal-binding]]		[[Category: Metal-binding]]
-	[[Category: Polymorphism]]
	[[Category: Secreted]]		[[Category: Secreted]]
	[[Category: Signal-anchor]]		[[Category: Signal-anchor]]
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Transmembrane]]		[[Category: Transmembrane]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 05:14:44 2009''

OCA at 03:14, 18 February 2009

2009-02-18T03:14:45Z

←Older revision		Revision as of 03:14, 18 February 2009
Line 23:		Line 23:

	==About this Structure==		==About this Structure==
-	2RIX is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA].	+	2RIX is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIX OCA].

	==Reference==		==Reference==
-	~~ABO(H) blood~~ group A and B glycosyltransferases recognize substrate via specific conformational changes., Alfaro JA, Zheng RB, Persson M, Letts JA, Polakowski R, Bai Y, Borisova SN, Seto NO, Lowary TL, Palcic MM, Evans SV, J Biol Chem. 2008 Jan 11;. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18192272 18192272]~~	+	<ref group="xtra">PMID:18192272</ref><references group="xtra"/>
	[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]		[[Category: Fucosylgalactoside 3-alpha-galactosyltransferase]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Alfaro, J A.]]		[[Category: Alfaro, J A.]]
	[[Category: Evans, S V.]]		[[Category: Evans, S V.]]
Line 46:		Line 45:
	[[Category: Transmembrane]]		[[Category: Transmembrane]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 11~~:56:~~00 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 05:14:44 2009''