4xvz - Revision history

OCA at 17:54, 26 April 2023

2023-04-26T17:54:37Z

←Older revision		Revision as of 17:54, 26 April 2023
Line 1:		Line 1:

	==MycF mycinamicin III 3'-O-methyltransferase in complex with Mg==		==MycF mycinamicin III 3'-O-methyltransferase in complex with Mg==
-	<StructureSection load='4xvz' size='340' side='right' caption='[[4xvz]], [[Resolution\|resolution]] 2.49Å' scene=''>	+	<StructureSection load='4xvz' size='340' side='right'caption='[[4xvz]], [[Resolution\|resolution]] 2.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xvz]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~'micromonospora_griseorubida' 'micromonospora~~ griseorubida']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XVZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4XVZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xvz]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Micromonospora_griseorubida Micromonospora griseorubida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XVZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XVZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=4xvz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xvz OCA], [https://pdbe.org/4xvz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xvz RCSB], [https://www.ebi.ac.uk/pdbsum/4xvz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xvz ProSAT]</span></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xvy\|4xvy]]</td></tr>~~	+
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mycF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28040 'Micromonospora griseorubida'])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mycinamicin_III_3''-O-methyltransferase Mycinamicin III 3''-O-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.237 2.1.1.237] </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=4xvz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xvz OCA], [~~http~~://pdbe.org/4xvz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4xvz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4xvz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4xvz ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/MYCF_MICGR MYCF_MICGR]] O-methyltransferase that catalyzes the conversion of mycinamicin III to mycinamicin IV in the biosynthesis of mycinamicin, a 16-membered macrolide antibiotic.<ref>PMID:19415708</ref> <ref>PMID:7808395</ref> <ref>PMID:8163162</ref>	+	[https://www.uniprot.org/uniprot/MYCF_MICGR MYCF_MICGR] O-methyltransferase that catalyzes the conversion of mycinamicin III to mycinamicin IV in the biosynthesis of mycinamicin, a 16-membered macrolide antibiotic.<ref>PMID:19415708</ref> <ref>PMID:7808395</ref> <ref>PMID:8163162</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Micromonospora griseorubida]]		[[Category: Micromonospora griseorubida]]
-	~~[[Category: Mycinamicin III 3''-O-methyltransferase]]~~	+	[[Category: Akey DL]]
-	[[Category: Akey~~, D L~~]]	+	[[Category: Smith JL]]
-	[[Category: Smith~~, J L]]~~	+
-	~~[[Category: Antibiotic]]~~	+
-	~~[[Category: Macrolide]]~~	+
-	~~[[Category: Methyltransferase]]~~	+
-	~~[[Category: Natural product]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 09:38, 22 November 2017

2017-11-22T09:38:08Z

←Older revision		Revision as of 09:38, 22 November 2017
Line 3:		Line 3:
	<StructureSection load='4xvz' size='340' side='right' caption='[[4xvz]], [[Resolution\|resolution]] 2.49Å' scene=''>		<StructureSection load='4xvz' size='340' side='right' caption='[[4xvz]], [[Resolution\|resolution]] 2.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xvz]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XVZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XVZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xvz]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/'micromonospora_griseorubida' 'micromonospora griseorubida']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XVZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XVZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xvy\|4xvy]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xvy\|4xvy]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mycF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28040 'Micromonospora griseorubida'])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mycinamicin_III_3''-O-methyltransferase Mycinamicin III 3''-O-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.237 2.1.1.237] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mycinamicin_III_3''-O-methyltransferase Mycinamicin III 3''-O-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.237 2.1.1.237] </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=4xvz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xvz OCA], [http://pdbe.org/4xvz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xvz RCSB], [http://www.ebi.ac.uk/pdbsum/4xvz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xvz ProSAT]</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=4xvz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xvz OCA], [http://pdbe.org/4xvz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xvz RCSB], [http://www.ebi.ac.uk/pdbsum/4xvz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xvz ProSAT]</span></td></tr>
Line 25:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Micromonospora griseorubida]]
	[[Category: Mycinamicin III 3''-O-methyltransferase]]		[[Category: Mycinamicin III 3''-O-methyltransferase]]
	[[Category: Akey, D L]]		[[Category: Akey, D L]]

OCA at 02:00, 10 March 2017

2017-03-10T02:00:23Z

←Older revision		Revision as of 02:00, 10 March 2017
Line 1:		Line 1:
		+
	==MycF mycinamicin III 3'-O-methyltransferase in complex with Mg==		==MycF mycinamicin III 3'-O-methyltransferase in complex with Mg==
	<StructureSection load='4xvz' size='340' side='right' caption='[[4xvz]], [[Resolution\|resolution]] 2.49Å' scene=''>		<StructureSection load='4xvz' size='340' side='right' caption='[[4xvz]], [[Resolution\|resolution]] 2.49Å' scene=''>
Line 7:		Line 8:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xvy\|4xvy]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xvy\|4xvy]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mycinamicin_III_3''-O-methyltransferase Mycinamicin III 3''-O-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.237 2.1.1.237] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mycinamicin_III_3''-O-methyltransferase Mycinamicin III 3''-O-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.237 2.1.1.237] </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=4xvz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xvz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4xvz RCSB], [http://www.ebi.ac.uk/pdbsum/4xvz 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=4xvz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xvz OCA], [http://pdbe.org/4xvz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xvz RCSB], [http://www.ebi.ac.uk/pdbsum/4xvz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xvz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	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 4xvz" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:28, 4 March 2015

2015-03-04T11:28:46Z

←Older revision		Revision as of 11:28, 4 March 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==MycF mycinamicin III 3'-O-methyltransferase in complex with Mg==
		+	<StructureSection load='4xvz' size='340' side='right' caption='[[4xvz]], [[Resolution\|resolution]] 2.49Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4xvz]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XVZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XVZ FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xvy\|4xvy]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mycinamicin_III_3''-O-methyltransferase Mycinamicin III 3''-O-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.237 2.1.1.237] </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=4xvz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xvz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4xvz RCSB], [http://www.ebi.ac.uk/pdbsum/4xvz PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MYCF_MICGR MYCF_MICGR]] O-methyltransferase that catalyzes the conversion of mycinamicin III to mycinamicin IV in the biosynthesis of mycinamicin, a 16-membered macrolide antibiotic.<ref>PMID:19415708</ref> <ref>PMID:7808395</ref> <ref>PMID:8163162</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sugar moieties in natural products are frequently modified by O-methylation. In the biosynthesis of the macrolide antibiotic mycinamicin, methylation of a 6'-deoxyallose substituent occurs in a stepwise manner first at the 2'- and then the 3'-hydroxyl groups to produce the mycinose moiety in the final product. The timing and placement of the O-methylations impact final stage C-H functionalization reactions mediated by the P450 monooxygenase MycG. The structural basis of pathway ordering and substrate specificity is unknown. A series of crystal structures of MycF, the 3'-O-methyltransferase, including the free enzyme and complexes with S-adenosyl homocysteine (SAH), substrate, product, and unnatural substrates, show that SAM binding induces substantial ordering that creates the binding site for the natural substrate, and a bound metal ion positions the substrate for catalysis. A single amino acid substitution relaxed the 2'-methoxy specificity but retained regiospecificity. The engineered variant produced a new mycinamicin analog, demonstrating the utility of structural information to facilitate bioengineering approaches for the chemoenzymatic synthesis of complex small molecules containing modified sugars. Using the MycF substrate complex and the modeled substrate complex of a 4'-specific homologue, active site residues were identified that correlate with the 3' or 4' specificity of MycF family members and define the protein and substrate features that direct the regiochemistry of methyltransfer. This classification scheme will be useful in the annotation of new secondary metabolite pathways that utilize this family of enzymes.

-	~~The entry 4xvz is ON HOLD~~	+	Structural Basis of Substrate Specificity and Regiochemistry in the MycF/TylF Family of Sugar O-Methyltransferases.,Bernard SM, Akey DL, Tripathi A, Park SR, Konwerski JR, Anzai Y, Li S, Kato F, Sherman DH, Smith JL ACS Chem Biol. 2015 Feb 26. PMID:25692963<ref>PMID:25692963</ref>

-	~~Authors: Akey~~, D.L.~~, Smith, J.L~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~MycF mycinamicin~~ III 3'-O-methyltransferase ~~in complex with Mg~~	+	== References ==
-	[[Category: ~~Unreleased Structures~~]]	+	<references/>
-	[[Category: Smith, J.L]]	+	__TOC__
-	[[Category: ~~Akey, D.L~~]]	+	</StructureSection>
		+	[[Category: Mycinamicin III 3''-O-methyltransferase]]
		+	[[Category: Akey, D L]]
		+	[[Category: Smith, J L]]
		+	[[Category: Antibiotic]]
		+	[[Category: Macrolide]]
		+	[[Category: Methyltransferase]]
		+	[[Category: Natural product]]
		+	[[Category: Transferase]]

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

2015-02-07T14:53:37Z

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

←Older revision

Revision as of 14:53, 7 February 2015

OCA: New page: '''Unreleased structure''' The entry 4xvz is ON HOLD Authors: Akey, D.L., Smith, J.L. Description: MycF mycinamicin III 3'-O-methyltransferase in complex with Mg [[Category: Unreleased...

2015-02-07T14:53:36Z

New page: '''Unreleased structure''' The entry 4xvz is ON HOLD Authors: Akey, D.L., Smith, J.L. Description: MycF mycinamicin III 3'-O-methyltransferase in complex with Mg [[Category: Unreleased...

New page

'''Unreleased structure'''

The entry 4xvz is ON HOLD

Authors: Akey, D.L., Smith, J.L.

Description: MycF mycinamicin III 3'-O-methyltransferase in complex with Mg
[[Category: Unreleased Structures]]
[[Category: Smith, J.L]]
[[Category: Akey, D.L]]