7en7 - Revision history

OCA at 16:57, 29 November 2023

OCA — Wed, 29 Nov 2023 16:57:05 GMT

←Older revision		Revision as of 16:57, 29 November 2023
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	<StructureSection load='7en7' size='340' side='right'caption='[[7en7]], [[Resolution\|resolution]] 1.22Å' scene=''>		<StructureSection load='7en7' size='340' side='right'caption='[[7en7]], [[Resolution\|resolution]] 1.22Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7en7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7EN7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EN7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7en7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7EN7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EN7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=J79:(2R)-2-[(2R,3R,4R,5S,6R)-3-acetamido-2,5-bis(oxidanyl)-6-(phosphonooxymethyl)oxan-4-yl]oxypropanoic+acid'>J79</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]] 1.22Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=J79:(2R)-2-[(2R,3R,4R,5S,6R)-3-acetamido-2,5-bis(oxidanyl)-6-(phosphonooxymethyl)oxan-4-yl]oxypropanoic+acid'>J79</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=7en7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7en7 OCA], [https://pdbe.org/7en7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7en7 RCSB], [https://www.ebi.ac.uk/pdbsum/7en7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7en7 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=7en7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7en7 OCA], [https://pdbe.org/7en7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7en7 RCSB], [https://www.ebi.ac.uk/pdbsum/7en7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7en7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/MURR_ECOLI MURR_ECOLI]] Represses the expression of the murPQ operon involved in the uptake and degradation of N-acetylmuramic acid (MurNAc). Binds to two adjacent inverted repeats within the operator region. MurNAc 6-phosphate, the substrate of MurQ, is the specific inducer that weakens binding of MurR to the operator. Also represses its own transcription.<ref>PMID:18723630</ref>	+	[https://www.uniprot.org/uniprot/MURR_ECOLI MURR_ECOLI] Represses the expression of the murPQ operon involved in the uptake and degradation of N-acetylmuramic acid (MurNAc). Binds to two adjacent inverted repeats within the operator region. MurNAc 6-phosphate, the substrate of MurQ, is the specific inducer that weakens binding of MurR to the operator. Also represses its own transcription.<ref>PMID:18723630</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: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen, W]]	+	[[Category: Chen W]]
-	[[Category: Ji, Q]]	+	[[Category: Ji Q]]
-	[[Category: Zhang, Y]]	+	[[Category: Zhang Y]]
-	~~[[Category: Gene regulation]]~~	+
-	~~[[Category: N-acetylmuramic-acid-6-phosphate]]~~	+
-	~~[[Category: Regulator]]~~	+
-	~~[[Category: Sugar-binding~~]]	+

OCA at 05:16, 15 June 2022

OCA — Wed, 15 Jun 2022 05:16:09 GMT

←Older revision		Revision as of 05:16, 15 June 2022
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	==The crystal structure of Escherichia coli MurR in complex with N-acetylmuramic-acid-6-phosphate==		==The crystal structure of Escherichia coli MurR in complex with N-acetylmuramic-acid-6-phosphate==
-	<StructureSection load='7en7' size='340' side='right'caption='[[7en7]]' scene=''>	+	<StructureSection load='7en7' size='340' side='right'caption='[[7en7]], [[Resolution\|resolution]] 1.22Å' 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=7EN7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EN7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7en7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7EN7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EN7 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=7en7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7en7 OCA], [https://pdbe.org/7en7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7en7 RCSB], [https://www.ebi.ac.uk/pdbsum/7en7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7en7 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=J79:(2R)-2-[(2R,3R,4R,5S,6R)-3-acetamido-2,5-bis(oxidanyl)-6-(phosphonooxymethyl)oxan-4-yl]oxypropanoic+acid'>J79</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=7en7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7en7 OCA], [https://pdbe.org/7en7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7en7 RCSB], [https://www.ebi.ac.uk/pdbsum/7en7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7en7 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/MURR_ECOLI MURR_ECOLI]] Represses the expression of the murPQ operon involved in the uptake and degradation of N-acetylmuramic acid (MurNAc). Binds to two adjacent inverted repeats within the operator region. MurNAc 6-phosphate, the substrate of MurQ, is the specific inducer that weakens binding of MurR to the operator. Also represses its own transcription.<ref>PMID:18723630</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The cell-wall recycling process is important for bacterial survival in nutrient-limited conditions and, in certain cases, is directly involved in antibiotic resistance. In the sophisticated cell-wall recycling process in Escherichia coli, the transcriptional repressor MurR controls the expression of murP and murQ, which are involved in transporting and metabolizing N-acetylmuramic acid (MurNAc), generating N-acetylmuramic acid-6-phosphate (MurNAc-6-P) and N-acetylglucosamine-6-phosphate (GlcNAc-6-P). Here, we report that both MurNAc-6-P and GlcNAc-6-P can bind to MurR and weaken the DNA binding ability of MurR. Structural characterizations of MurR in complex with MurNAc-6-P or GlcNAc-6-P as well as in the apo form revealed the detailed ligand recognition chemistries. Further studies showed that only MurNAc-6-P, but not GlcNAc-6-P, is capable of derepressing the expression of murQP controlled by MurR in cells and clarified the substrate specificity through the identification of key residues responsible for ligand binding in the complex structures. In summary, this study deciphered the molecular mechanism of the cell wall recycling process regulated by MurR in E. coli.
		+
		+	Molecular basis for cell-wall recycling regulation by transcriptional repressor MurR in Escherichia coli.,Zhang Y, Chen W, Wu D, Liu Y, Wu Z, Li J, Zhang SY, Ji Q Nucleic Acids Res. 2022 Jun 10;50(10):5948-5960. doi: 10.1093/nar/gkac442. PMID:35640608<ref>PMID:35640608</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7en7" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen W]]	+	[[Category: Chen, W]]
-	[[Category: Ji Q]]	+	[[Category: Ji, Q]]
-	[[Category: Zhang Y]]	+	[[Category: Zhang, Y]]
		+	[[Category: Gene regulation]]
		+	[[Category: N-acetylmuramic-acid-6-phosphate]]
		+	[[Category: Regulator]]
		+	[[Category: Sugar-binding]]

OCA at 02:50, 21 April 2022

OCA — Thu, 21 Apr 2022 02:50:33 GMT

←Older revision		Revision as of 02:50, 21 April 2022
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-	'''Unreleased structure'''

-	The ~~entry~~ 7en7 is ~~ON HOLD until Paper Publication~~	+	==The crystal structure of Escherichia coli MurR in complex with N-acetylmuramic-acid-6-phosphate==
-		+	<StructureSection load='7en7' size='340' side='right'caption='[[7en7]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7EN7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EN7 FirstGlance]. <br>
-	~~Description~~:	+	</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=7en7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7en7 OCA], [https://pdbe.org/7en7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7en7 RCSB], [https://www.ebi.ac.uk/pdbsum/7en7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7en7 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Chen W]]
		+	[[Category: Ji Q]]
		+	[[Category: Zhang Y]]

OCA at 06:01, 25 June 2021

OCA — Fri, 25 Jun 2021 06:01:49 GMT

←Older revision		Revision as of 06:01, 25 June 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7en7 is ON HOLD	+	The entry 7en7 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7en7" [edit=sysop:move=sysop]

OCA — Wed, 21 Apr 2021 06:10:11 GMT

Protected "7en7" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:10, 21 April 2021

OCA: New page: '''Unreleased structure''' The entry 7en7 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 21 Apr 2021 06:10:09 GMT

New page: '''Unreleased structure''' The entry 7en7 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7en7 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]