5fa0 - Revision history

OCA at 06:43, 19 July 2023

2023-07-19T06:43:35Z

← Older revision		Revision as of 06:43, 19 July 2023
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	==The structure of the beta-3-deoxy-D-manno-oct-2-ulosonic acid transferase domain from WbbB==		==The structure of the beta-3-deoxy-D-manno-oct-2-ulosonic acid transferase domain from WbbB==
	<StructureSection load='5fa0' size='340' side='right' caption='[[5fa0]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='5fa0' size='340' side='right'caption='[[5fa0]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5fa0]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_33257 Atcc 33257~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FA0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5FA0 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5fa0]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Raoultella_terrigena Raoultella terrigena]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FA0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FA0 FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=CL:CHLORIDE+ION'>CL</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]] 2.3Å</td></tr>
	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td></tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat">[[5fa1\|5fa1]]</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=5fa0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fa0 OCA], [https://pdbe.org/5fa0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5fa0 RCSB], [https://www.ebi.ac.uk/pdbsum/5fa0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5fa0 ProSAT]</span></td></tr>
	~~<tr id='gene~~'>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]~~</b>~~</td><td class="sblockDat">wbbB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=577 ATCC 33257])~~</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=5fa0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fa0 OCA], [~~http~~://pdbe.org/5fa0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5fa0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5fa0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5fa0 ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/Q6U8B0_RAOTE Q6U8B0_RAOTE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Atcc 33257~~]]		[[Category: Large Structures]]
	[[Category: ~~Kimber, M S~~]]		[[Category: Raoultella terrigena]]
	[[Category: ~~Mallette, E~~]]		[[Category: Kimber MS]]
	[[Category: ~~Ovchinnikova, O G~~]]		[[Category: Mallette E]]
	[[Category: ~~Whitfield, C~~]]		[[Category: Ovchinnikova OG]]
	[[Category: ~~Glycosyltransferase]]~~		[[Category: Whitfield C]]
	~~[[Category: Lps biosynthesis]]~~
	~~[[Category: Transferase~~]]

OCA at 05:47, 25 April 2018

2018-04-25T05:47:23Z

← Older revision		Revision as of 05:47, 25 April 2018
Line 3:		Line 3:
	<StructureSection load='5fa0' size='340' side='right' caption='[[5fa0]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='5fa0' size='340' side='right' caption='[[5fa0]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5fa0]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FA0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FA0 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5fa0]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_33257 Atcc 33257]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FA0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FA0 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fa1\|5fa1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fa1\|5fa1]]</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=5fa0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fa0 OCA], [http://pdbe.org/5fa0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fa0 RCSB], [http://www.ebi.ac.uk/pdbsum/5fa0 PDBsum]</span></td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">wbbB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=577 ATCC 33257])</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=5fa0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fa0 OCA], [http://pdbe.org/5fa0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fa0 RCSB], [http://www.ebi.ac.uk/pdbsum/5fa0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fa0 ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Kdo (3-deoxy-d-manno-oct-2-ulosonic acid) is an eight-carbon sugar mostly confined to Gram-negative bacteria. It is often involved in attaching surface polysaccharides to their lipid anchors. alpha-Kdo provides a bridge between lipid A and the core oligosaccharide in all bacterial LPSs, whereas an oligosaccharide of beta-Kdo residues links "group 2" capsular polysaccharides to (lyso)phosphatidylglycerol. beta-Kdo is also found in a small number of other bacterial polysaccharides. The structure and function of the prototypical cytidine monophosphate-Kdo-dependent alpha-Kdo glycosyltransferase from LPS assembly is well characterized. In contrast, the beta-Kdo counterparts were not identified as glycosyltransferase enzymes by bioinformatics tools and were not represented among the 98 currently recognized glycosyltransferase families in the Carbohydrate-Active Enzymes database. We report the crystallographic structure and function of a prototype beta-Kdo GT from WbbB, a modular protein participating in LPS O-antigen synthesis in Raoultella terrigena The beta-Kdo GT has dual Rossmann-fold motifs typical of GT-B enzymes, but extensive deletions, insertions, and rearrangements result in a unique architecture that makes it a prototype for a new GT family (GT99). The cytidine monophosphate-binding site in the C-terminal alpha/beta domain closely resembles the corresponding site in bacterial sialyltransferases, suggesting an evolutionary connection that is not immediately evident from the overall fold or sequence similarities.

			Bacterial beta-Kdo glycosyltransferases represent a new glycosyltransferase family (GT99).,Ovchinnikova OG, Mallette E, Koizumi A, Lowary TL, Kimber MS, Whitfield C Proc Natl Acad Sci U S A. 2016 May 31;113(22):E3120-9. doi:, 10.1073/pnas.1603146113. Epub 2016 May 19. PMID:27199480<ref>PMID:27199480</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 5fa0" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Atcc 33257]]
	[[Category: Kimber, M S]]		[[Category: Kimber, M S]]
	[[Category: Mallette, E]]		[[Category: Mallette, E]]

OCA at 15:52, 1 June 2016

2016-06-01T15:52:44Z

← Older revision		Revision as of 15:52, 1 June 2016
Line 1:		Line 1:
	~~'''Unreleased structure'''~~

	~~The entry 5fa0 is ON HOLD until Paper Publication~~		==The structure of the beta-3-deoxy-D-manno-oct-2-ulosonic acid transferase domain from WbbB==
			<StructureSection load='5fa0' size='340' side='right' caption='[[5fa0]], [[Resolution\|resolution]] 2.30Å' scene=''>
	~~Authors: Mallette, E., Ovchinnikova, O.G., Whitfield, C., Kimber, M.S.~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[5fa0]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FA0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FA0 FirstGlance]. <br>
	~~Description:~~ The structure of the beta-3-deoxy-D-manno-oct-2-ulosonic acid transferase domain from WbbB		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	[[Category: ~~Unreleased Structures~~]]		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
			<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fa1\|5fa1]]</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=5fa0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fa0 OCA], [http://pdbe.org/5fa0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fa0 RCSB], [http://www.ebi.ac.uk/pdbsum/5fa0 PDBsum]</span></td></tr>
			</table>
			__TOC__
			</StructureSection>
			[[Category: Kimber, M S]]
	[[Category: Mallette, E]]		[[Category: Mallette, E]]
			[[Category: Ovchinnikova, O G]]
	[[Category: Whitfield, C]]		[[Category: Whitfield, C]]
	[[Category: ~~Ovchinnikova, O.G~~]]		[[Category: Glycosyltransferase]]
	[[Category: ~~Kimber, M.S~~]]		[[Category: Lps biosynthesis]]
			[[Category: Transferase]]

OCA at 17:41, 30 December 2015

2015-12-30T17:41:46Z

← Older revision		Revision as of 17:41, 30 December 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 5fa0 is ON HOLD		The entry 5fa0 is ON HOLD until Paper Publication

	Authors: Mallette, E., Ovchinnikova, O.G., Whitfield, C., Kimber, M.S.		Authors: Mallette, E., Ovchinnikova, O.G., Whitfield, C., Kimber, M.S.

OCA: Protected "5fa0" [edit=sysop:move=sysop]

2015-12-16T12:47:32Z

Protected "5fa0" [edit=sysop:move=sysop]

← Older revision	Revision as of 12:47, 16 December 2015
(No difference)

OCA: New page: '''Unreleased structure''' The entry 5fa0 is ON HOLD Authors: Mallette, E., Ovchinnikova, O.G., Whitfield, C., Kimber, M.S. Description: The structure of the beta-3-deoxy-D-manno-oct-2...

2015-12-16T12:47:30Z

New page: '''Unreleased structure''' The entry 5fa0 is ON HOLD Authors: Mallette, E., Ovchinnikova, O.G., Whitfield, C., Kimber, M.S. Description: The structure of the beta-3-deoxy-D-manno-oct-2...

New page

'''Unreleased structure'''

The entry 5fa0 is ON HOLD

Authors: Mallette, E., Ovchinnikova, O.G., Whitfield, C., Kimber, M.S.

Description: The structure of the beta-3-deoxy-D-manno-oct-2-ulosonic acid transferase domain from WbbB
[[Category: Unreleased Structures]]
[[Category: Mallette, E]]
[[Category: Whitfield, C]]
[[Category: Ovchinnikova, O.G]]
[[Category: Kimber, M.S]]