4kwc - Revision history

OCA at 12:15, 1 March 2024

2024-03-01T12:15:56Z

←Older revision		Revision as of 12:15, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4kwc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_pumilus Bacillus pumilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KWC FirstGlance]. <br>		<table><tr><td colspan='2'>[[4kwc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_pumilus Bacillus pumilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KWC FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</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]] 1.994Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</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=4kwc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwc OCA], [https://pdbe.org/4kwc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kwc RCSB], [https://www.ebi.ac.uk/pdbsum/4kwc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwc 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=4kwc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwc OCA], [https://pdbe.org/4kwc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kwc RCSB], [https://www.ebi.ac.uk/pdbsum/4kwc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwc ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Plantazolicin (PZN), a polyheterocyclic, Nalpha,Nalpha-dimethylarginine-containing antibiotic, harbors remarkably specific bactericidal activity toward strains of Bacillus anthracis, the causative agent of anthrax. Previous studies demonstrated that genetic deletion of the S-adenosyl-l-methionine-dependent methyltransferase from the PZN biosynthetic gene cluster results in the formation of desmethylPZN, which is devoid of antibiotic activity. Here we describe the in vitro reconstitution, mutational analysis, and X-ray crystallographic structure of the PZN methyltransferase. Unlike all other known small molecule methyltransferases, which act upon diverse substrates in vitro, the PZN methyltransferase is uncharacteristically limited in substrate scope and functions only on desmethylPZN and close derivatives. The crystal structures of two related PZN methyltransferases, solved to 1.75 A (Bacillus amyloliquefaciens) and 2.0 A (Bacillus pumilus), reveal a deep, narrow cavity, putatively functioning as the binding site for desmethylPZN. The narrowness of this cavity provides a framework for understanding the molecular basis of the extreme substrate selectivity. Analysis of a panel of point mutations to the methyltransferase from B. amyloliquefaciens allowed the identification of residues of structural and catalytic importance. These findings further our understanding of one set of orthologous enzymes involved in thiazole/oxazole-modified microcin biosynthesis, a rapidly growing sector of natural products research.
-
-	Structural and functional insight into an unexpectedly selective N-methyltransferase involved in plantazolicin biosynthesis.,Lee J, Hao Y, Blair PM, Melby JO, Agarwal V, Burkhart BJ, Nair SK, Mitchell DA Proc Natl Acad Sci U S A. 2013 Jul 22. PMID:23878226<ref>PMID:23878226</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4kwc" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 09:18, 7 December 2022

2022-12-07T09:18:50Z

←Older revision		Revision as of 09:18, 7 December 2022
Line 1:		Line 1:

	==Structure of the plantazolicin methyltransferase BpumL in complex with SAH==		==Structure of the plantazolicin methyltransferase BpumL in complex with SAH==
-	<StructureSection load='4kwc' size='340' side='right' caption='[[4kwc]], [[Resolution\|resolution]] 1.99Å' scene=''>	+	<StructureSection load='4kwc' size='340' side='right'caption='[[4kwc]], [[Resolution\|resolution]] 1.99Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kwc]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_7061 Atcc 7061~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4KWC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kwc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_pumilus Bacillus pumilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KWC FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kvz\|4kvz]]</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=4kwc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwc OCA], [https://pdbe.org/4kwc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kwc RCSB], [https://www.ebi.ac.uk/pdbsum/4kwc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwc ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAT_2465 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1408 ATCC 7061])~~</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=4kwc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwc OCA], [~~http~~://pdbe.org/4kwc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4kwc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4kwc PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwc ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 7061~~]]	+	[[Category: Bacillus pumilus]]
-	[[Category: ~~Hao, Y~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Nair, S K~~]]	+	[[Category: Hao Y]]
-	[[Category: ~~Methyltransferase]]~~	+	[[Category: Nair SK]]
-	~~[[Category: Tomm]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 14:24, 4 August 2016

2016-08-04T14:24:57Z

←Older revision		Revision as of 14:24, 4 August 2016
Line 1:		Line 1:
		+
	==Structure of the plantazolicin methyltransferase BpumL in complex with SAH==		==Structure of the plantazolicin methyltransferase BpumL in complex with SAH==
	<StructureSection load='4kwc' size='340' side='right' caption='[[4kwc]], [[Resolution\|resolution]] 1.99Å' scene=''>		<StructureSection load='4kwc' size='340' side='right' caption='[[4kwc]], [[Resolution\|resolution]] 1.99Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kwc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_pumilus Bacillus pumilus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KWC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kwc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_7061 Atcc 7061]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KWC FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kvz\|4kvz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kvz\|4kvz]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAT_2465 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1408 ~~Bacillus pumilus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAT_2465 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1408 ATCC 7061])</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=4kwc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kwc RCSB], [http://www.ebi.ac.uk/pdbsum/4kwc PDBsum]</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=4kwc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwc OCA], [http://pdbe.org/4kwc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kwc RCSB], [http://www.ebi.ac.uk/pdbsum/4kwc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwc ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 17:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4kwc" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus pumilus~~]]	+	[[Category: Atcc 7061]]
	[[Category: Hao, Y]]		[[Category: Hao, Y]]
	[[Category: Nair, S K]]		[[Category: Nair, S K]]

OCA at 15:36, 21 December 2014

2014-12-21T15:36:57Z

←Older revision		Revision as of 15:36, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4kwc\| PDB=4kwc \| SCENE= }}~~	+	==Structure of the plantazolicin methyltransferase BpumL in complex with SAH==
-	===Structure of the plantazolicin methyltransferase BpumL in complex with SAH===	+	<StructureSection load='4kwc' size='340' side='right' caption='[[4kwc]], [[Resolution\|resolution]] 1.99Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23878226}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4kwc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_pumilus Bacillus pumilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KWC FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kvz\|4kvz]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAT_2465 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1408 Bacillus pumilus])</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=4kwc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kwc RCSB], [http://www.ebi.ac.uk/pdbsum/4kwc PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Plantazolicin (PZN), a polyheterocyclic, Nalpha,Nalpha-dimethylarginine-containing antibiotic, harbors remarkably specific bactericidal activity toward strains of Bacillus anthracis, the causative agent of anthrax. Previous studies demonstrated that genetic deletion of the S-adenosyl-l-methionine-dependent methyltransferase from the PZN biosynthetic gene cluster results in the formation of desmethylPZN, which is devoid of antibiotic activity. Here we describe the in vitro reconstitution, mutational analysis, and X-ray crystallographic structure of the PZN methyltransferase. Unlike all other known small molecule methyltransferases, which act upon diverse substrates in vitro, the PZN methyltransferase is uncharacteristically limited in substrate scope and functions only on desmethylPZN and close derivatives. The crystal structures of two related PZN methyltransferases, solved to 1.75 A (Bacillus amyloliquefaciens) and 2.0 A (Bacillus pumilus), reveal a deep, narrow cavity, putatively functioning as the binding site for desmethylPZN. The narrowness of this cavity provides a framework for understanding the molecular basis of the extreme substrate selectivity. Analysis of a panel of point mutations to the methyltransferase from B. amyloliquefaciens allowed the identification of residues of structural and catalytic importance. These findings further our understanding of one set of orthologous enzymes involved in thiazole/oxazole-modified microcin biosynthesis, a rapidly growing sector of natural products research.

-	~~==About this Structure==~~	+	Structural and functional insight into an unexpectedly selective N-methyltransferase involved in plantazolicin biosynthesis.,Lee J, Hao Y, Blair PM, Melby JO, Agarwal V, Burkhart BJ, Nair SK, Mitchell DA Proc Natl Acad Sci U S A. 2013 Jul 22. PMID:23878226<ref>PMID:23878226</ref>
-	~~[[4kwc]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bacillus_pumilus Bacillus pumilus]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023878226</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Bacillus pumilus]]		[[Category: Bacillus pumilus]]
-	[[Category: Hao, Y.]]	+	[[Category: Hao, Y]]
-	[[Category: Nair, S K.]]	+	[[Category: Nair, S K]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]
	[[Category: Tomm]]		[[Category: Tomm]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 19:27, 7 August 2013

2013-08-07T19:27:10Z

←Older revision		Revision as of 19:27, 7 August 2013
Line 1:		Line 1:
	{{STRUCTURE_4kwc\| PDB=4kwc \| SCENE= }}		{{STRUCTURE_4kwc\| PDB=4kwc \| SCENE= }}
	===Structure of the plantazolicin methyltransferase BpumL in complex with SAH===		===Structure of the plantazolicin methyltransferase BpumL in complex with SAH===
		+	{{ABSTRACT_PUBMED_23878226}}

	==About this Structure==		==About this Structure==
	[[4kwc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_pumilus Bacillus pumilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA].		[[4kwc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_pumilus Bacillus pumilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:023878226</ref><references group="xtra"/><references/>
	[[Category: Bacillus pumilus]]		[[Category: Bacillus pumilus]]
	[[Category: Hao, Y.]]		[[Category: Hao, Y.]]

OCA at 13:13, 24 July 2013

2013-07-24T13:13:18Z

←Older revision		Revision as of 13:13, 24 July 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4kwc\| PDB=4kwc \| SCENE= }}
		+	===Structure of the plantazolicin methyltransferase BpumL in complex with SAH===

-	~~The entry~~ 4kwc is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
-		+	[[4kwc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_pumilus Bacillus pumilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWC OCA].
-	~~Authors~~: Hao, Y., Nair, S.K.	+	[[Category: Bacillus pumilus]]
-		+	[[Category: Hao, Y.]]
-	~~Description~~: ~~Structure of the plantazolicin methyltransferase BpumL in complex with SAH~~	+	[[Category: Nair, S K.]]
		+	[[Category: Methyltransferase]]
		+	[[Category: Tomm]]
		+	[[Category: Transferase]]

OCA at 13:16, 3 July 2013

2013-07-03T13:16:15Z

←Older revision		Revision as of 13:16, 3 July 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4kwc is ON HOLD	+	The entry 4kwc is ON HOLD until Paper Publication

	Authors: Hao, Y., Nair, S.K.		Authors: Hao, Y., Nair, S.K.

	Description: Structure of the plantazolicin methyltransferase BpumL in complex with SAH		Description: Structure of the plantazolicin methyltransferase BpumL in complex with SAH

OCA: Protected "4kwc" [edit=sysop:move=sysop]

2013-06-19T12:08:10Z

Protected "4kwc" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:08, 19 June 2013

OCA: New page: '''Unreleased structure''' The entry 4kwc is ON HOLD Authors: Hao, Y., Nair, S.K. Description: Structure of the plantazolicin methyltransferase BpumL in complex with SAH

2013-06-19T12:08:08Z

New page: '''Unreleased structure''' The entry 4kwc is ON HOLD Authors: Hao, Y., Nair, S.K. Description: Structure of the plantazolicin methyltransferase BpumL in complex with SAH

New page

'''Unreleased structure'''

The entry 4kwc is ON HOLD

Authors: Hao, Y., Nair, S.K.

Description: Structure of the plantazolicin methyltransferase BpumL in complex with SAH