6i7w - Revision history

OCA at 11:48, 24 January 2024

2024-01-24T11:48:51Z

←Older revision		Revision as of 11:48, 24 January 2024
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	==Structure of the periplasmic binding protein (PBP) AccA in complex with 2-glucose-2-O-lactic acid phosphate (G2LP) from Agrobacterium fabrum C58==		==Structure of the periplasmic binding protein (PBP) AccA in complex with 2-glucose-2-O-lactic acid phosphate (G2LP) from Agrobacterium fabrum C58==
-	<StructureSection load='6i7w' size='340' side='right' caption='[[6i7w]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='6i7w' size='340' side='right'caption='[[6i7w]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6i7w]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Agrfc Agrfc~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I7W OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6I7W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6i7w]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I7W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6I7W FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=H6Q:[(2~{S})-1,1-~~bis(oxidanyl)propan~~-2-yl]~~+[(2~{R~~}~~,3~{R},4~{S},5~{S},6~{R})-6-~~(~~hydroxymethyl~~)-~~2,4,5~~-~~tris(oxidanyl)oxan~~-~~3-yl]+hydrogen+phosphate~~'>H6Q</scene>, <scene name='pdbligand=H6Z:[(2~{S})-1,1-~~bis(oxidanyl)propan~~-2-yl]~~+[(2~{S~~}~~,3~{R},4~{S},5~{S},6~{R})-6-~~(~~hydroxymethyl~~)-~~2,4,5~~-~~tris(oxidanyl)oxan~~-~~3-yl]+hydrogen+phosphate~~'>H6Z</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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">[[4ra1\|4ra1]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=H6Q:2-O-[(R)-{[(2S)-1,1-dihydroxypropan-2-yl]oxy}(hydroxy)phosphoryl]-beta-D-glucopyranose'>H6Q</scene>, <scene name='pdbligand=H6Z:2-O-[(R)-{[(2S)-1,1-dihydroxypropan-2-yl]oxy}(hydroxy)phosphoryl]-alpha-D-glucopyranose'>H6Z</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">accA, Atu6139 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 AGRFC])~~</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=6i7w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6i7w OCA], [https://pdbe.org/6i7w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6i7w RCSB], [https://www.ebi.ac.uk/pdbsum/6i7w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6i7w 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=6i7w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6i7w OCA], [~~http~~://pdbe.org/6i7w PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6i7w RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6i7w PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6i7w ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q52012_AGRFC Q52012_AGRFC]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Agrfc~~]]	+	[[Category: Agrobacterium fabrum str. C58]]
-	[[Category: ~~Morera, S~~]]	+	[[Category: Large Structures]]
-	[[Category: Sahili, A El]]	+	[[Category: El Sahili A]]
-	[[Category: ~~Vigouroux, A~~]]	+	[[Category: Morera S]]
-	[[Category: ~~Transport protein~~]]	+	[[Category: Vigouroux A]]

OCA at 08:27, 6 March 2019

2019-03-06T08:27:51Z

←Older revision		Revision as of 08:27, 6 March 2019
Line 1:		Line 1:

	==Structure of the periplasmic binding protein (PBP) AccA in complex with 2-glucose-2-O-lactic acid phosphate (G2LP) from Agrobacterium fabrum C58==		==Structure of the periplasmic binding protein (PBP) AccA in complex with 2-glucose-2-O-lactic acid phosphate (G2LP) from Agrobacterium fabrum C58==
-	<StructureSection load='6i7w' size='340' side='right' caption='[[6i7w]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='6i7w' size='340' side='right' caption='[[6i7w]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6i7w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrfc Agrfc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I7W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6I7W FirstGlance]. <br>		<table><tr><td colspan='2'>[[6i7w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrfc Agrfc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I7W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6I7W FirstGlance]. <br>

OCA at 09:53, 13 February 2019

2019-02-13T09:53:08Z

←Older revision		Revision as of 09:53, 13 February 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6i7w is ~~ON HOLD~~	+	==Structure of the periplasmic binding protein (PBP) AccA in complex with 2-glucose-2-O-lactic acid phosphate (G2LP) from Agrobacterium fabrum C58==
		+	<StructureSection load='6i7w' size='340' side='right' caption='[[6i7w]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6i7w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrfc Agrfc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I7W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6I7W FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=H6Q:[(2~{S})-1,1-bis(oxidanyl)propan-2-yl]+[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-2,4,5-tris(oxidanyl)oxan-3-yl]+hydrogen+phosphate'>H6Q</scene>, <scene name='pdbligand=H6Z:[(2~{S})-1,1-bis(oxidanyl)propan-2-yl]+[(2~{S},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-2,4,5-tris(oxidanyl)oxan-3-yl]+hydrogen+phosphate'>H6Z</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ra1\|4ra1]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">accA, Atu6139 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 AGRFC])</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=6i7w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6i7w OCA], [http://pdbe.org/6i7w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6i7w RCSB], [http://www.ebi.ac.uk/pdbsum/6i7w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6i7w ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The first non-natural derivative of the rare d-glucose-2-phosphate (G2P), namely glucose-2-(O-lactic acid phosphate) (G2LP), has been synthesized. When used as sole carbon source, G2LP enables bacterial growth of the plant pathogenic strain Agrobacterium fabrum C58 (formerly referred to as Agrobacterium tumefaciens). X-ray crystallography and affinity measurements investigations reveal that G2LP binds the periplasmic binding protein (PBP) AccA similarly to the natural compounds and with the same affinity. Moreover, enzymatic assays show that it is able to serve as substrate of the phosphodiesterase AccF. The properties found for G2LP demonstrate that the very unusual glucose-2-phosphoryl residue, present in G2LP, can be used as structural feature for designing non-natural systems fully compatible with the Acc cascade of A. fabrum.

-	~~Authors: Morera, S~~., ~~Vigouroux~~, A., El Sahili, A.	+	Synthesis of a non-natural glucose-2-phosphate ester able to dupe the acc system of Agrobacterium fabrum.,Li SZ, Vigouroux A, Ahmar M, El Sahili A, Soulere L, Sago L, Cornu D, Morera S, Queneau Y Org Biomol Chem. 2019 Jan 31;17(5):1090-1096. doi: 10.1039/c8ob03086c. PMID:30632589<ref>PMID:30632589</ref>

-	~~Description: Structure~~ of the ~~periplasmic binding protein (PBP) AccA in complex with 2~~-~~glucose~~-~~2-O-lactic acid phosphate (G2LP) from Agrobacterium fabrum C58~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~El Sahili, A~~]]	+	<div class="pdbe-citations 6i7w" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Agrfc]]
	[[Category: Morera, S]]		[[Category: Morera, S]]
		+	[[Category: Sahili, A El]]
	[[Category: Vigouroux, A]]		[[Category: Vigouroux, A]]
		+	[[Category: Transport protein]]

OCA: Protected "6i7w" [edit=sysop:move=sysop]

2018-12-02T18:43:14Z

Protected "6i7w" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:43, 2 December 2018

OCA: New page: '''Unreleased structure''' The entry 6i7w is ON HOLD Authors: Morera, S., Vigouroux, A., El Sahili, A. Description: Structure of the periplasmic binding protein (PBP) AccA in complex w...

2018-12-02T18:43:12Z

New page: '''Unreleased structure''' The entry 6i7w is ON HOLD Authors: Morera, S., Vigouroux, A., El Sahili, A. Description: Structure of the periplasmic binding protein (PBP) AccA in complex w...

New page

'''Unreleased structure'''

The entry 6i7w is ON HOLD

Authors: Morera, S., Vigouroux, A., El Sahili, A.

Description: Structure of the periplasmic binding protein (PBP) AccA in complex with 2-glucose-2-O-lactic acid phosphate (G2LP) from Agrobacterium fabrum C58
[[Category: Unreleased Structures]]
[[Category: El Sahili, A]]
[[Category: Morera, S]]
[[Category: Vigouroux, A]]