5e9u - Revision history

OCA at 06:18, 5 July 2023

OCA — Wed, 05 Jul 2023 06:18:21 GMT

←Older revision		Revision as of 06:18, 5 July 2023
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	<StructureSection load='5e9u' size='340' side='right'caption='[[5e9u]], [[Resolution\|resolution]] 3.84Å' scene=''>		<StructureSection load='5e9u' size='340' side='right'caption='[[5e9u]], [[Resolution\|resolution]] 3.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5e9u]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_10558 Atcc 10558~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E9U OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5E9U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5e9u]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_gordonii Streptococcus gordonii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E9U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5E9U FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=MG:MAGNESIUM+ION'~~>~~MG</scene>, <scene name='pdbligand=NAG:N~~-~~ACETYL-D-GLUCOSAMINE'>NAG</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]] 3.84Å</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=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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"~~>~~[[5e9t\|5e9t]]~~</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=5e9u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e9u OCA], [https://pdbe.org/5e9u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5e9u RCSB], [https://www.ebi.ac.uk/pdbsum/5e9u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5e9u ProSAT]</span></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td><td class="sblockDat">gtf1, gtfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1302 ATCC 10558]), gtf2, gtfB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1302 ATCC 10558])</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=5e9u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e9u OCA], [~~http~~://pdbe.org/5e9u PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5e9u RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5e9u PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5e9u ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~GTF1_STRGN GTF1_STRGN~~]~~] An N~~-~~acetylglucosaminyl transferase that is part~~ of ~~the accessory SecA2/SecY2 system specifically required to export~~ GspB, a serine-rich repeat cell wall protein ~~usually~~ encoded upstream in the same operon. ~~Required for correct~~ glycosylation ~~of GspB. Upon coexpression~~ in ~~E.coli with Gtf2 (GtfB) glycosylates~~ GspB ~~constructs~~. ~~Glycosylation probably occurs intracellularly.<ref>PMID:15489421</ref> [[http://www.uniprot.org/uniprot/GTF2_STRGN GTF2_STRGN]] A stabilizing protein that is part~~ of the accessory SecA2/SecY2 system specifically required to export ~~GspB, a serine-rich repeat cell wall protein encoded upstream in the same operon. Required for correct glycosylation of~~ GspB. Upon coexpression in E.coli with ~~Gtf1 (GtfA)~~ glycosylates GspB constructs. ~~Stabilizes the~~ glycosylation activity ~~of Gtf1~~ (~~By similarity~~).<ref>PMID:15489421</ref>	+	[https://www.uniprot.org/uniprot/GTFA_STRGN GTFA_STRGN] Required for polymorphic O-glycosylation of GspB, a serine-rich repeat cell wall protein encoded upstream in the same operon. Catalyzes the first step in glycosylation by transferring N-acetylglucosamine from UDP-GlcNAc to serine residues in GspB. Part of the accessory SecA2/SecY2 system specifically required to export GspB. Upon coexpression in E.coli with GtfB glycosylates GspB constructs. Glycosylation probably occurs intracellularly (PubMed:15489421). Requires GtfB for glycosylation activity, it has no activity alone. Does not use UDP-glucose as substrate. Has a fast, probably processive glycosylation phase followed by a slower, non-processive phase. The enzyme probably modifies its tertiary conformation by opening and closing its intersubunit interfaces to accomodate the increasingly glycosylated substrate; protein substrate recognition is provided by GtfB (PubMed:26884191).<ref>PMID:15489421</ref> <ref>PMID:26884191</ref>
	<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 10558]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Chen, Y~~]]	+	[[Category: Streptococcus gordonii]]
-	[[Category: ~~Rapoport, T A~~]]	+	[[Category: Chen Y]]
-	[[Category: ~~Accessory protein translocation]]~~	+	[[Category: Rapoport TA]]
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Glycosyltransferase]]~~	+
-	~~[[Category: Transferase-chaperone complex~~]]	+

OCA at 16:09, 20 November 2019

OCA — Wed, 20 Nov 2019 16:09:23 GMT

←Older revision		Revision as of 16:09, 20 November 2019
Line 1:		Line 1:

	==Crystal structure of GtfA/B complex bound to UDP and GlcNAc==		==Crystal structure of GtfA/B complex bound to UDP and GlcNAc==
-	<StructureSection load='5e9u' size='340' side='right' caption='[[5e9u]], [[Resolution\|resolution]] 3.84Å' scene=''>	+	<StructureSection load='5e9u' size='340' side='right'caption='[[5e9u]], [[Resolution\|resolution]] 3.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5e9u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_10558 Atcc 10558]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E9U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E9U FirstGlance]. <br>		<table><tr><td colspan='2'>[[5e9u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_10558 Atcc 10558]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E9U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E9U FirstGlance]. <br>
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	</div>		</div>
	<div class="pdbe-citations 5e9u" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5e9u" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Glycosyltransferase 3D structures\|Glycosyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Atcc 10558]]		[[Category: Atcc 10558]]
		+	[[Category: Large Structures]]
	[[Category: Chen, Y]]		[[Category: Chen, Y]]
	[[Category: Rapoport, T A]]		[[Category: Rapoport, T A]]

OCA at 12:37, 6 November 2017

OCA — Mon, 06 Nov 2017 12:37:33 GMT

←Older revision		Revision as of 12:37, 6 November 2017
Line 3:		Line 3:
	<StructureSection load='5e9u' size='340' side='right' caption='[[5e9u]], [[Resolution\|resolution]] 3.84Å' scene=''>		<StructureSection load='5e9u' size='340' side='right' caption='[[5e9u]], [[Resolution\|resolution]] 3.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5e9u]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E9U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E9U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5e9u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_10558 Atcc 10558]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E9U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E9U FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</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">[[5e9t\|5e9t]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5e9t\|5e9t]]</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=5e9u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e9u OCA], [http://pdbe.org/5e9u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e9u RCSB], [http://www.ebi.ac.uk/pdbsum/5e9u PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gtf1, gtfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1302 ATCC 10558]), gtf2, gtfB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1302 ATCC 10558])</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=5e9u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e9u OCA], [http://pdbe.org/5e9u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e9u RCSB], [http://www.ebi.ac.uk/pdbsum/5e9u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e9u ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 24:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 10558]]
	[[Category: Chen, Y]]		[[Category: Chen, Y]]
	[[Category: Rapoport, T A]]		[[Category: Rapoport, T A]]

OCA at 15:12, 2 March 2016

OCA — Wed, 02 Mar 2016 15:12:37 GMT

←Older revision		Revision as of 15:12, 2 March 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5e9u is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of GtfA/B complex bound to UDP and GlcNAc==
		+	<StructureSection load='5e9u' size='340' side='right' caption='[[5e9u]], [[Resolution\|resolution]] 3.84Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5e9u]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E9U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E9U FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</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">[[5e9t\|5e9t]]</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=5e9u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e9u OCA], [http://pdbe.org/5e9u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e9u RCSB], [http://www.ebi.ac.uk/pdbsum/5e9u PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GTF1_STRGN GTF1_STRGN]] An N-acetylglucosaminyl transferase that is part of the accessory SecA2/SecY2 system specifically required to export GspB, a serine-rich repeat cell wall protein usually encoded upstream in the same operon. Required for correct glycosylation of GspB. Upon coexpression in E.coli with Gtf2 (GtfB) glycosylates GspB constructs. Glycosylation probably occurs intracellularly.<ref>PMID:15489421</ref> [[http://www.uniprot.org/uniprot/GTF2_STRGN GTF2_STRGN]] A stabilizing protein that is part of the accessory SecA2/SecY2 system specifically required to export GspB, a serine-rich repeat cell wall protein encoded upstream in the same operon. Required for correct glycosylation of GspB. Upon coexpression in E.coli with Gtf1 (GtfA) glycosylates GspB constructs. Stabilizes the glycosylation activity of Gtf1 (By similarity).<ref>PMID:15489421</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	O-glycosylation of Ser and Thr residues is an important process in all organisms, which is only poorly understood. Such modification is required for the export and function of adhesin proteins that mediate the attachment of pathogenic Gram-positive bacteria to host cells. Here, we have analyzed the mechanism by which the cytosolic O-glycosyltransferase GtfA/B of Streptococcus gordonii modifies the Ser/Thr-rich repeats of adhesin. The enzyme is a tetramer containing two molecules each of GtfA and GtfB. The two subunits have the same fold, but only GtfA contains an active site, whereas GtfB provides the primary binding site for adhesin. During a first phase of glycosylation, the conformation of GtfB is restrained by GtfA to bind substrate with unmodified Ser/Thr residues. In a slow second phase, GtfB recognizes residues that are already modified with N-acetylglucosamine, likely by converting into a relaxed conformation in which one interface with GtfA is broken. These results explain how the glycosyltransferase modifies a progressively changing substrate molecule.

-	~~Authors: Chen~~, Y., ~~Rapoport~~, T.A.	+	Mechanism of a cytosolic O-glycosyltransferase essential for the synthesis of a bacterial adhesion protein.,Chen Y, Seepersaud R, Bensing BA, Sullam PM, Rapoport TA Proc Natl Acad Sci U S A. 2016 Feb 16. pii: 201600494. PMID:26884191<ref>PMID:26884191</ref>

-	~~Description: Crystal structure~~ of ~~GtfA~~/~~B complex bound to UDP and GlcNAc~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 5e9u" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Chen, Y]]		[[Category: Chen, Y]]
-	[[Category: Rapoport, T.A]]	+	[[Category: Rapoport, T A]]
		+	[[Category: Accessory protein translocation]]
		+	[[Category: Complex]]
		+	[[Category: Glycosyltransferase]]
		+	[[Category: Transferase-chaperone complex]]

OCA at 22:50, 27 January 2016

OCA — Wed, 27 Jan 2016 22:50:36 GMT

←Older revision		Revision as of 22:50, 27 January 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5e9u is ON HOLD	+	The entry 5e9u is ON HOLD until Paper Publication

	Authors: Chen, Y., Rapoport, T.A.		Authors: Chen, Y., Rapoport, T.A.

OCA at 13:18, 20 January 2016

OCA — Wed, 20 Jan 2016 13:18:32 GMT

←Older revision		Revision as of 13:18, 20 January 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5e9u is ON HOLD ~~until Paper Publication~~	+	The entry 5e9u is ON HOLD

	Authors: Chen, Y., Rapoport, T.A.		Authors: Chen, Y., Rapoport, T.A.

OCA at 02:33, 1 December 2015

OCA — Tue, 01 Dec 2015 02:33:10 GMT

←Older revision		Revision as of 02:33, 1 December 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5e9u is ON HOLD	+	The entry 5e9u is ON HOLD until Paper Publication

	Authors: Chen, Y., Rapoport, T.A.		Authors: Chen, Y., Rapoport, T.A.

OCA: Protected "5e9u" [edit=sysop:move=sysop]

OCA — Thu, 22 Oct 2015 04:34:15 GMT

Protected "5e9u" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:34, 22 October 2015

OCA: New page: '''Unreleased structure''' The entry 5e9u is ON HOLD Authors: Chen, Y., Rapoport, T.A. Description: Crystal structure of GtfA/B complex bound to UDP and GlcNAc [[Category: Unreleased S...

OCA — Thu, 22 Oct 2015 04:34:13 GMT

New page: '''Unreleased structure''' The entry 5e9u is ON HOLD Authors: Chen, Y., Rapoport, T.A. Description: Crystal structure of GtfA/B complex bound to UDP and GlcNAc [[Category: Unreleased S...

New page

'''Unreleased structure'''

The entry 5e9u is ON HOLD

Authors: Chen, Y., Rapoport, T.A.

Description: Crystal structure of GtfA/B complex bound to UDP and GlcNAc
[[Category: Unreleased Structures]]
[[Category: Chen, Y]]
[[Category: Rapoport, T.A]]