7exz - Revision history

OCA at 17:06, 29 November 2023

OCA — Wed, 29 Nov 2023 17:06:22 GMT

←Older revision		Revision as of 17:06, 29 November 2023
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-	====	+	==DgpB-DgpC complex apo 2.5 angstrom==
-	<StructureSection load='7exz' size='340' side='right'caption='[[7exz]]' scene=''>	+	<StructureSection load='7exz' size='340' side='right'caption='[[7exz]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7exz]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_intestinal_bacterium_PUE Human intestinal bacterium PUE]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7EXZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EXZ FirstGlance]. <br>
-	</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=7exz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7exz OCA], [https://pdbe.org/7exz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7exz RCSB], [https://www.ebi.ac.uk/pdbsum/7exz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7exz ProSAT]</span></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]] 2.5Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=7exz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7exz OCA], [https://pdbe.org/7exz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7exz RCSB], [https://www.ebi.ac.uk/pdbsum/7exz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7exz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A3Q9WXL1_9BACT A0A3Q9WXL1_9BACT]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	C-Glycosides, in which a sugar moiety is linked via a carbon-carbon (C-C) bond to a non-sugar moiety (aglycone), are found in our food and medicine. The C-C bond is cleaved by intestinal microbes and the resulting aglycones exert various bioactivities. Although the enzymes responsible for the reactions have been identified, their catalytic mechanisms and the generality of the reactions in nature remain to be explored. Here, we present the identification and structural basis for the activation of xenobiotic C-glycosides by heterocomplex C-deglycosylation enzymes from intestinal and soil bacteria. They are found to be metal-dependent enzymes exhibiting broad substrate specificity toward C-glycosides. X-ray crystallographic and cryo-electron microscopic analyses, as well as structure-based mutagenesis, reveal the structural details of these enzymes and the detailed catalytic mechanisms of their remarkable C-C bond cleavage reactions. Furthermore, bioinformatic and biochemical analyses suggest that the C-deglycosylation enzymes are widely distributed in the gut, soil, and marine bacteria.
		+
		+	C-Glycoside metabolism in the gut and in nature: Identification, characterization, structural analyses and distribution of C-C bond-cleaving enzymes.,Mori T, Kumano T, He H, Watanabe S, Senda M, Moriya T, Adachi N, Hori S, Terashita Y, Kawasaki M, Hashimoto Y, Awakawa T, Senda T, Abe I, Kobayashi M Nat Commun. 2021 Nov 2;12(1):6294. doi: 10.1038/s41467-021-26585-1. PMID:34728636<ref>PMID:34728636</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7exz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human intestinal bacterium PUE]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Abe I]]
		+	[[Category: Mori T]]
		+	[[Category: Senda M]]
		+	[[Category: Senda T]]

OCA at 14:30, 3 November 2021

OCA — Wed, 03 Nov 2021 14:30:08 GMT

←Older revision		Revision as of 14:30, 3 November 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7exz ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7exz' size='340' side='right'caption='[[7exz]]' scene=''>
-	~~Authors~~: ~~Mori, T~~.~~, Senda, M~~.~~, Senda, T~~.~~, Abe, I~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~: ~~DgpB-DgpC complex apo 2~~.~~5 angstrom~~	+	</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=7exz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7exz OCA], [https://pdbe.org/7exz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7exz RCSB], [https://www.ebi.ac.uk/pdbsum/7exz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7exz ProSAT]</span></td></tr>
-	[~~[Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[~~[Category~~: ~~Abe, I~~]]	+	__TOC__
-	[~~[Category~~: ~~Mori~~, T]]	+	</StructureSection>
-	[[Category: ~~Senda, M~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Senda, T~~]]	+	[[Category: Z-disk]]

OCA at 08:38, 7 July 2021

OCA — Wed, 07 Jul 2021 08:38:23 GMT

←Older revision		Revision as of 08:38, 7 July 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7exz is ON HOLD	+	The entry 7exz is ON HOLD until Paper Publication

	Authors: Mori, T., Senda, M., Senda, T., Abe, I.		Authors: Mori, T., Senda, M., Senda, T., Abe, I.
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	Description: DgpB-DgpC complex apo 2.5 angstrom		Description: DgpB-DgpC complex apo 2.5 angstrom
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Senda, M]]
-	[[Category: Senda, T]]
	[[Category: Abe, I]]		[[Category: Abe, I]]
	[[Category: Mori, T]]		[[Category: Mori, T]]
		+	[[Category: Senda, M]]
		+	[[Category: Senda, T]]

OCA: Protected "7exz" [edit=sysop:move=sysop]

OCA — Wed, 09 Jun 2021 10:58:30 GMT

Protected "7exz" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:58, 9 June 2021

OCA: New page: '''Unreleased structure''' The entry 7exz is ON HOLD Authors: Mori, T., Senda, M., Senda, T., Abe, I. Description: DgpB-DgpC complex apo 2.5 angstrom [[Category: Unreleased Structures]...

OCA — Wed, 09 Jun 2021 10:58:29 GMT

New page: '''Unreleased structure''' The entry 7exz is ON HOLD Authors: Mori, T., Senda, M., Senda, T., Abe, I. Description: DgpB-DgpC complex apo 2.5 angstrom [[Category: Unreleased Structures]...

New page

'''Unreleased structure'''

The entry 7exz is ON HOLD

Authors: Mori, T., Senda, M., Senda, T., Abe, I.

Description: DgpB-DgpC complex apo 2.5 angstrom
[[Category: Unreleased Structures]]
[[Category: Senda, M]]
[[Category: Senda, T]]
[[Category: Abe, I]]
[[Category: Mori, T]]