7mtt - Revision history

OCA at 16:20, 18 October 2023

2023-10-18T16:20:03Z

←Older revision		Revision as of 16:20, 18 October 2023
Line 3:		Line 3:
	<StructureSection load='7mtt' size='340' side='right'caption='[[7mtt]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='7mtt' size='340' side='right'caption='[[7mtt]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7mtt]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7MTT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7MTT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7mtt]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7MTT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7MTT FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NHE:2~~-[~~N-CYCLOHEXYLAMINO~~]~~ETHANE+SULFONIC+ACID'>NHE</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]] 1.85Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">clbS, APU18_08100, AWF59_018730, AZZ83_004503, CT146_21495, CUB99_02165, D3C88_24730, DNR41_00045, DNX30_29170, DS966_21615, DU333_02935, DW236_02620, ELT23_23590, ELT33_24270, EPS70_02685, EPS94_00180, EWK56_23755, FPI65_12320, FQU83_11985, GFU47_04510, GP945_05010, GP946_20500, HHG54_004716, HHJ44_00090, HJL93_000008, HJM41_001166, HJO44_004707, HJS53_002303, HmCmsJML146_00176, HNX34_25610, HV055_09710, HV098_09980, HV348_09415, NCTC9075_02752, NCTC9434_01964 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~562~~ "~~Bacillus coli~~" ~~Migula 1895~~])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</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=7mtt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7mtt OCA], [https://pdbe.org/7mtt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7mtt RCSB], [https://www.ebi.ac.uk/pdbsum/7mtt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7mtt 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=7mtt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7mtt OCA], [https://pdbe.org/7mtt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7mtt RCSB], [https://www.ebi.ac.uk/pdbsum/7mtt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7mtt ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q0P7K8_ECOLX Q0P7K8_ECOLX]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bruner~~, S D~~]]	+	[[Category: Bruner SD]]
-	[[Category: Tripathi, P]]	+	[[Category: Tripathi P]]
-	~~[[Category: Dna binding protein]]~~	+
-	~~[[Category: Dna repair]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 12:34, 9 June 2021

2021-06-09T12:34:35Z

←Older revision		Revision as of 12:34, 9 June 2021
Line 1:		Line 1:

	==Crystal structure of colibactin self-resistance protein ClbS in complex with two molecules of CHES==		==Crystal structure of colibactin self-resistance protein ClbS in complex with two molecules of CHES==
-	<StructureSection load='7mtt' size='340' side='right'caption='[[7mtt]]' scene=''>	+	<StructureSection load='7mtt' size='340' side='right'caption='[[7mtt]], [[Resolution\|resolution]] 1.85Å' 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=7MTT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7MTT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7mtt]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7MTT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7MTT 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=7mtt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7mtt OCA], [https://pdbe.org/7mtt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7mtt RCSB], [https://www.ebi.ac.uk/pdbsum/7mtt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7mtt 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=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clbS, APU18_08100, AWF59_018730, AZZ83_004503, CT146_21495, CUB99_02165, D3C88_24730, DNR41_00045, DNX30_29170, DS966_21615, DU333_02935, DW236_02620, ELT23_23590, ELT33_24270, EPS70_02685, EPS94_00180, EWK56_23755, FPI65_12320, FQU83_11985, GFU47_04510, GP945_05010, GP946_20500, HHG54_004716, HHJ44_00090, HJL93_000008, HJM41_001166, HJO44_004707, HJS53_002303, HmCmsJML146_00176, HNX34_25610, HV055_09710, HV098_09980, HV348_09415, NCTC9075_02752, NCTC9434_01964 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=7mtt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7mtt OCA], [https://pdbe.org/7mtt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7mtt RCSB], [https://www.ebi.ac.uk/pdbsum/7mtt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7mtt ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The natural product colibactin, along with its associated biosynthetic gene cluster, is an example system for the role microbially derived small molecules play in the human microbiome. This is particularly relevant in the human gut, where host microbiota is involved in various disorders, including colorectal cancer pathogenesis. Bacteria harboring the colibactin gene cluster induce alkylation of nucleobases in host DNA, forming interstrand cross-links both in vivo and in vitro. These lesions can lead to deleterious double-strand breaks and have been identified as the primary mechanism of colibactin-induced cytotoxicity. The gene product ClbS is one of several mechanisms utilized by the producing bacteria to maintain genome integrity. ClbS catalyzes hydrolytic inactivation of colibactin and has been shown to bind DNA, incurring self-resistance. Presented is the molecular basis for ClbS bound to a DNA oligonucleotide. The structure shows the interaction of the protein with the ends of a DNA duplex with terminal nucleotides flipped to the enzyme active site. The structure suggests an additional function for ClbS, the binding to damaged DNA followed by repair. Additionally, our study provides general insight into the function of the widely distributed and largely uncharacterized DUF1706 protein family.
		+
		+	Structural Basis for the Interactions of the Colibactin Resistance Gene Product ClbS with DNA.,Tripathi P, Bruner SD Biochemistry. 2021 May 25;60(20):1619-1625. doi: 10.1021/acs.biochem.1c00201., Epub 2021 May 4. PMID:33945270<ref>PMID:33945270</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7mtt" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus coli migula 1895]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bruner SD]]	+	[[Category: Bruner, S D]]
-	[[Category: Tripathi P]]	+	[[Category: Tripathi, P]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Dna repair]]
		+	[[Category: Hydrolase]]

OCA at 09:21, 26 May 2021

2021-05-26T09:21:12Z

←Older revision		Revision as of 09:21, 26 May 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 7mtt is ON HOLD~~	+	==Crystal structure of colibactin self-resistance protein ClbS in complex with two molecules of CHES==
-		+	<StructureSection load='7mtt' size='340' side='right'caption='[[7mtt]]' scene=''>
-	~~Authors: Tripathi, P., Bruner, S.D.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7MTT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7MTT FirstGlance]. <br>
-	~~Description:~~ Crystal structure of colibactin self-resistance protein ClbS in complex with two molecules of CHES	+	</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=7mtt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7mtt OCA], [https://pdbe.org/7mtt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7mtt RCSB], [https://www.ebi.ac.uk/pdbsum/7mtt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7mtt ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Tripathi, P~~]]	+	__TOC__
-	[[Category: ~~Bruner, S.D~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Bruner SD]]
		+	[[Category: Tripathi P]]

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

2021-05-19T09:00:13Z

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

←Older revision

Revision as of 09:00, 19 May 2021

OCA: New page: '''Unreleased structure''' The entry 7mtt is ON HOLD Authors: Tripathi, P., Bruner, S.D. Description: Crystal structure of colibactin self-resistance protein ClbS in complex with two m...

2021-05-19T09:00:12Z

New page: '''Unreleased structure''' The entry 7mtt is ON HOLD Authors: Tripathi, P., Bruner, S.D. Description: Crystal structure of colibactin self-resistance protein ClbS in complex with two m...

New page

'''Unreleased structure'''

The entry 7mtt is ON HOLD

Authors: Tripathi, P., Bruner, S.D.

Description: Crystal structure of colibactin self-resistance protein ClbS in complex with two molecules of CHES
[[Category: Unreleased Structures]]
[[Category: Tripathi, P]]
[[Category: Bruner, S.D]]