5kwk - Revision history

OCA at 10:59, 27 September 2023

OCA — Wed, 27 Sep 2023 10:59:33 GMT

←Older revision		Revision as of 10:59, 27 September 2023
Line 1:		Line 1:

	==The structure of Arabidopsis thaliana FUT1 in complex with GDP==		==The structure of Arabidopsis thaliana FUT1 in complex with GDP==
-	<StructureSection load='5kwk' size='340' side='right' caption='[[5kwk]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='5kwk' size='340' side='right'caption='[[5kwk]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kwk]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Arath Arath~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KWK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kwk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KWK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</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]] 1.9Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kx6\|5kx6]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FUT1, FT1, MUR2, At2g03220, T18E12.11 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</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=5kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwk OCA], [https://pdbe.org/5kwk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kwk RCSB], [https://www.ebi.ac.uk/pdbsum/5kwk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwk ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Galactoside_2-alpha-L-fucosyltransferase Galactoside 2-alpha-L-fucosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.69 2.4.1.69] </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=5kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwk OCA], [~~http~~://pdbe.org/5kwk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kwk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kwk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwk ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/FUT1_ARATH FUT1_ARATH]] Involved in cell wall biosynthesis. Is both necessary and sufficient for the addition of the terminal fucosyl residue on xyloglucan side chains, but is not involved in the fucosylation of other cell wall components (PubMed:10373113, PubMed:11743104, PubMed:11854459, PubMed:14730072). Associates with other xyloglucan-synthesizing enzymes to form multiprotein complexes for xyloglucan synthesis in the Golgi (PubMed:25392066).<ref>PMID:10373113</ref> <ref>PMID:11743104</ref> <ref>PMID:11854459</ref> <ref>PMID:14730072</ref> <ref>PMID:25392066</ref>	+	[https://www.uniprot.org/uniprot/FUT1_ARATH FUT1_ARATH] Involved in cell wall biosynthesis. Is both necessary and sufficient for the addition of the terminal fucosyl residue on xyloglucan side chains, but is not involved in the fucosylation of other cell wall components (PubMed:10373113, PubMed:11743104, PubMed:11854459, PubMed:14730072). Associates with other xyloglucan-synthesizing enzymes to form multiprotein complexes for xyloglucan synthesis in the Golgi (PubMed:25392066).<ref>PMID:10373113</ref> <ref>PMID:11743104</ref> <ref>PMID:11854459</ref> <ref>PMID:14730072</ref> <ref>PMID:25392066</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arath~~]]	+	[[Category: Arabidopsis thaliana]]
-	[[Category: ~~Galactoside 2-alpha-L-fucosyltransferase~~]]	+	[[Category: Large Structures]]
-	[[Category: Alahuhta~~, P M~~]]	+	[[Category: Alahuhta PM]]
-	[[Category: Lunin~~, V V]]~~	+	[[Category: Lunin VV]]
-	~~[[Category: Acetyl transferase]]~~	+
-	~~[[Category: Cell adhesion]]~~	+
-	~~[[Category: Gt37~~]]	+

OCA at 05:46, 30 May 2018

OCA — Wed, 30 May 2018 05:46:41 GMT

←Older revision		Revision as of 05:46, 30 May 2018
Line 3:		Line 3:
	<StructureSection load='5kwk' size='340' side='right' caption='[[5kwk]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5kwk' size='340' side='right' caption='[[5kwk]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kwk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KWK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kwk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KWK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kx6\|5kx6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kx6\|5kx6]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FUT1, FT1, MUR2, At2g03220, T18E12.11 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Galactoside_2-alpha-L-fucosyltransferase Galactoside 2-alpha-L-fucosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.69 2.4.1.69] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Galactoside_2-alpha-L-fucosyltransferase Galactoside 2-alpha-L-fucosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.69 2.4.1.69] </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=5kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwk OCA], [http://pdbe.org/5kwk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kwk RCSB], [http://www.ebi.ac.uk/pdbsum/5kwk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwk ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwk OCA], [http://pdbe.org/5kwk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kwk RCSB], [http://www.ebi.ac.uk/pdbsum/5kwk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwk ProSAT]</span></td></tr>
Line 11:		Line 12:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/FUT1_ARATH FUT1_ARATH]] Involved in cell wall biosynthesis. Is both necessary and sufficient for the addition of the terminal fucosyl residue on xyloglucan side chains, but is not involved in the fucosylation of other cell wall components (PubMed:10373113, PubMed:11743104, PubMed:11854459, PubMed:14730072). Associates with other xyloglucan-synthesizing enzymes to form multiprotein complexes for xyloglucan synthesis in the Golgi (PubMed:25392066).<ref>PMID:10373113</ref> <ref>PMID:11743104</ref> <ref>PMID:11854459</ref> <ref>PMID:14730072</ref> <ref>PMID:25392066</ref>		[[http://www.uniprot.org/uniprot/FUT1_ARATH FUT1_ARATH]] Involved in cell wall biosynthesis. Is both necessary and sufficient for the addition of the terminal fucosyl residue on xyloglucan side chains, but is not involved in the fucosylation of other cell wall components (PubMed:10373113, PubMed:11743104, PubMed:11854459, PubMed:14730072). Associates with other xyloglucan-synthesizing enzymes to form multiprotein complexes for xyloglucan synthesis in the Golgi (PubMed:25392066).<ref>PMID:10373113</ref> <ref>PMID:11743104</ref> <ref>PMID:11854459</ref> <ref>PMID:14730072</ref> <ref>PMID:25392066</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The mechanistic underpinnings of the complex process of plant polysaccharide biosynthesis are poorly understood, largely because of the resistance of glycosyltransferase (GT) enzymes to structural characterization. In Arabidopsis thaliana, a glycosyl transferase family 37 (GT37) fucosyltransferase 1 (AtFUT1) catalyzes the regiospecific transfer of terminal 1,2-fucosyl residues to xyloglucan side chains - a key step in the biosynthesis of fucosylated sidechains of galactoxyloglucan. We unravel the mechanistic basis for fucosylation by AtFUT1 with a multipronged approach involving protein expression, X-ray crystallography, mutagenesis experiments and molecular simulations. Mammalian cell culture expressions enable the sufficient production of the enzyme for X-ray crystallography, which reveals the structural architecture of AtFUT1 in complex with bound donor and acceptor substrate analogs. The lack of an appropriately positioned active site residue as a catalytic base leads us to propose an atypical water-mediated fucosylation mechanism facilitated by an H-bonded network, which is corroborated by mutagenesis experiments as well as detailed atomistic simulations.
		+
		+	Structural, mutagenic and in silico studies of xyloglucan fucosylation in Arabidopsis thaliana suggest a water-mediated mechanism.,Urbanowicz BR, Bharadwaj VS, Alahuhta M, Pena MJ, Lunin VV, Bomble YJ, Wang S, Yang JY, Tuomivaara ST, Himmel ME, Moremen KW, York WS, Crowley MF Plant J. 2017 Sep;91(6):931-949. doi: 10.1111/tpj.13628. Epub 2017 Aug 28. PMID:28670741<ref>PMID:28670741</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5kwk" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arath]]
	[[Category: Galactoside 2-alpha-L-fucosyltransferase]]		[[Category: Galactoside 2-alpha-L-fucosyltransferase]]
	[[Category: Alahuhta, P M]]		[[Category: Alahuhta, P M]]

OCA at 17:11, 3 October 2016

OCA — Mon, 03 Oct 2016 17:11:20 GMT

←Older revision		Revision as of 17:11, 3 October 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 5kwk is ~~ON HOLD until Paper Publication~~	+	==The structure of Arabidopsis thaliana FUT1 in complex with GDP==
-		+	<StructureSection load='5kwk' size='340' side='right' caption='[[5kwk]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~Authors~~: ~~Alahuhta~~, P.M., ~~Lunin~~, V.V.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5kwk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KWK FirstGlance]. <br>
-	~~Description~~: ~~The structure~~ of ~~Arabidopsis thaliana FUT1~~ in ~~complex~~ with ~~GDP~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kx6\|5kx6]]</td></tr>
-	[[Category: Alahuhta, P.M]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Galactoside_2-alpha-L-fucosyltransferase Galactoside 2-alpha-L-fucosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.69 2.4.1.69] </span></td></tr>
-	[[Category: Lunin, V.V]]	+	<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=5kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwk OCA], [http://pdbe.org/5kwk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kwk RCSB], [http://www.ebi.ac.uk/pdbsum/5kwk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwk ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/FUT1_ARATH FUT1_ARATH]] Involved in cell wall biosynthesis. Is both necessary and sufficient for the addition of the terminal fucosyl residue on xyloglucan side chains, but is not involved in the fucosylation of other cell wall components (PubMed:10373113, PubMed:11743104, PubMed:11854459, PubMed:14730072). Associates with other xyloglucan-synthesizing enzymes to form multiprotein complexes for xyloglucan synthesis in the Golgi (PubMed:25392066).<ref>PMID:10373113</ref> <ref>PMID:11743104</ref> <ref>PMID:11854459</ref> <ref>PMID:14730072</ref> <ref>PMID:25392066</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Galactoside 2-alpha-L-fucosyltransferase]]
		+	[[Category: Alahuhta, P M]]
		+	[[Category: Lunin, V V]]
		+	[[Category: Acetyl transferase]]
		+	[[Category: Cell adhesion]]
		+	[[Category: Gt37]]

OCA at 14:24, 9 September 2016

OCA — Fri, 09 Sep 2016 14:24:21 GMT

←Older revision		Revision as of 14:24, 9 September 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Alahuhta, P.M., Lunin, V.V.		Authors: Alahuhta, P.M., Lunin, V.V.

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

OCA — Wed, 27 Jul 2016 13:28:19 GMT

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

←Older revision

Revision as of 13:28, 27 July 2016

OCA: New page: '''Unreleased structure''' The entry 5kwk is ON HOLD Authors: Alahuhta, P.M., Lunin, V.V. Description: The structure of Arabidopsis thaliana FUT1 in complex with GDP [[Category: Unrele...

OCA — Wed, 27 Jul 2016 13:28:18 GMT

New page: '''Unreleased structure''' The entry 5kwk is ON HOLD Authors: Alahuhta, P.M., Lunin, V.V. Description: The structure of Arabidopsis thaliana FUT1 in complex with GDP [[Category: Unrele...

New page

'''Unreleased structure'''

The entry 5kwk is ON HOLD

Authors: Alahuhta, P.M., Lunin, V.V.

Description: The structure of Arabidopsis thaliana FUT1 in complex with GDP
[[Category: Unreleased Structures]]
[[Category: Alahuhta, P.M]]
[[Category: Lunin, V.V]]