7bvr - Revision history

OCA at 15:36, 29 November 2023

OCA — Wed, 29 Nov 2023 15:36:53 GMT

←Older revision		Revision as of 15:36, 29 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7bvr]] 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=7BVR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BVR FirstGlance]. <br>		<table><tr><td colspan='2'>[[7bvr]] 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=7BVR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BVR FirstGlance]. <br>
-	</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></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]] 2.6Å</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></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=7bvr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bvr OCA], [https://pdbe.org/7bvr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bvr RCSB], [https://www.ebi.ac.uk/pdbsum/7bvr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bvr ProSAT]</span></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=7bvr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bvr OCA], [https://pdbe.org/7bvr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bvr RCSB], [https://www.ebi.ac.uk/pdbsum/7bvr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bvr ProSAT]</span></td></tr>
	</table>		</table>

OCA at 06:21, 26 October 2022

OCA — Wed, 26 Oct 2022 06:21:47 GMT

←Older revision		Revision as of 06:21, 26 October 2022
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-	====	+	==DgpB-DgpC complex apo==
-	<StructureSection load='7bvr' size='340' side='right'caption='[[7bvr]]' scene=''>	+	<StructureSection load='7bvr' size='340' side='right'caption='[[7bvr]], [[Resolution\|resolution]] 2.60Å' 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'>[[7bvr]] 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=7BVR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BVR 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=7bvr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bvr OCA], [https://pdbe.org/7bvr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bvr RCSB], [https://www.ebi.ac.uk/pdbsum/7bvr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bvr ProSAT]</span></td></tr>	+	</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></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=7bvr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bvr OCA], [https://pdbe.org/7bvr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bvr RCSB], [https://www.ebi.ac.uk/pdbsum/7bvr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bvr 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 7bvr" 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: He H]]
		+	[[Category: Mori T]]

OCA at 06:45, 14 April 2021

OCA — Wed, 14 Apr 2021 06:45:57 GMT

←Older revision		Revision as of 06:45, 14 April 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7bvr ~~is ON HOLD~~	+	====
-		+	<StructureSection load='7bvr' size='340' side='right'caption='[[7bvr]]' scene=''>
-	~~Authors~~: ~~Mori, T~~.~~, He, H~~.~~, 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~~	+	</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=7bvr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bvr OCA], [https://pdbe.org/7bvr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bvr RCSB], [https://www.ebi.ac.uk/pdbsum/7bvr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bvr ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Abe~~, I]]	+	__TOC__
-	[[Category: ~~Mori, T~~]]	+	</StructureSection>
-	[[Category: ~~He, H~~]]	+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 05:34, 6 January 2021

OCA — Wed, 06 Jan 2021 05:34:24 GMT

←Older revision		Revision as of 05:34, 6 January 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7bvr is ON HOLD ~~until Paper Publication~~	+	The entry 7bvr is ON HOLD

	Authors: Mori, T., He, H., Abe, I.		Authors: Mori, T., He, H., Abe, I.
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	Description: DgpB-DgpC complex apo		Description: DgpB-DgpC complex apo
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Mori, T]]
	[[Category: Abe, I]]		[[Category: Abe, I]]
		+	[[Category: Mori, T]]
	[[Category: He, H]]		[[Category: He, H]]

OCA at 04:51, 6 May 2020

OCA — Wed, 06 May 2020 04:51:59 GMT

←Older revision		Revision as of 04:51, 6 May 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Mori, T., He, H., Abe, I.		Authors: Mori, T., He, H., Abe, I.

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

OCA — Wed, 22 Apr 2020 04:36:37 GMT

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

←Older revision

Revision as of 04:36, 22 April 2020

OCA: New page: '''Unreleased structure''' The entry 7bvr is ON HOLD Authors: Mori, T., He, H., Abe, I. Description: DgpB-DgpC complex apo Category: Unreleased Structures Category: Mori, T [[C...

OCA — Wed, 22 Apr 2020 04:36:35 GMT

New page: '''Unreleased structure''' The entry 7bvr is ON HOLD Authors: Mori, T., He, H., Abe, I. Description: DgpB-DgpC complex apo Category: Unreleased Structures Category: Mori, T [[C...

New page

'''Unreleased structure'''

The entry 7bvr is ON HOLD

Authors: Mori, T., He, H., Abe, I.

Description: DgpB-DgpC complex apo
[[Category: Unreleased Structures]]
[[Category: Mori, T]]
[[Category: Abe, I]]
[[Category: He, H]]