4e2w - Revision history

OCA at 14:50, 14 March 2024

2024-03-14T14:50:36Z

← Older revision		Revision as of 14:50, 14 March 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e2w]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Micromonospora_chalcea Micromonospora chalcea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E2W FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e2w]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Micromonospora_chalcea Micromonospora chalcea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E2W FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=JHZ:(2R,4S,6R)-4-amino-4,6-dimethyl-5-oxotetrahydro-2H-pyran-2-yl+[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl+dihydrogen+diphosphate+(non-preferred+name)'>JHZ</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.5Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=JHZ:(2R,4S,6R)-4-amino-4,6-dimethyl-5-oxotetrahydro-2H-pyran-2-yl+[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl+dihydrogen+diphosphate+(non-preferred+name)'>JHZ</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=4e2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e2w OCA], [https://pdbe.org/4e2w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e2w RCSB], [https://www.ebi.ac.uk/pdbsum/4e2w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e2w 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=4e2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e2w OCA], [https://pdbe.org/4e2w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e2w RCSB], [https://www.ebi.ac.uk/pdbsum/4e2w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e2w ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/B5L6K6_MICCH B5L6K6_MICCH]]		[https://www.uniprot.org/uniprot/B5L6K6_MICCH B5L6K6_MICCH]
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	d-Tetronitrose is a nitro-containing tetradeoxysugar found attached to the antitumor and antibacterial agent tetrocarcin A. The biosynthesis of this highly unusual sugar in Micromonospora chalcea requires ten enzymes. The fifth step in the pathway involves the transfer of a methyl group from S-adenosyl-l-methionine (SAM) to the C-3' carbon of dTDP-3-amino-2,3,6-trideoxy-4-keto-d-glucose. The enzyme responsible for this transformation is referred to as TcaB9. It is a monomeric enzyme with a molecular architecture based around three domains. The N-terminal motif contains a binding site for a structural zinc ion. The middle- and C-terminal domains serve to anchor the SAM and dTDP-sugar ligands, respectively, to the protein, and the active site of TcaB9 is wedged between these two regions. For this investigation, the roles of Tyr 76, His 181, Tyr 222, Glu 224, and His 225, which form the active site of TcaB9, were probed by site-directed mutagenesis, kinetic analyses, and X-ray structural studies. In addition, two ternary complexes of the enzyme with bound S-adenosyl-l-homocysteine and either dTDP-3-amino-2,3,6-trideoxy-4-keto-d-glucose or dTDP-3-amino-2,3,6-trideoxy-d-galactose were determined to 1.5-A or 1.6-A resolution, respectively. Taken together, these investigations highlight the important role of His 225 in methyl transfer. In addition, the structural data suggest that the methylation reaction occurs via retention of configuration about the C-3' carbon of the sugar.

	Probing the catalytic mechanism of a C-3'-methyltransferase involved in the biosynthesis of D-tetronitrose.,Bruender NA, Holden HM Protein Sci. 2012 Apr 11. doi: 10.1002/pro.2074. PMID:22495991<ref>PMID:22495991</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 4e2w" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:46, 28 September 2022

2022-09-28T06:46:53Z

← Older revision		Revision as of 06:46, 28 September 2022
Line 1:		Line 1:

	==X-ray Structure of the H181N mutant of TcaB9, a C-3'-Methyltransferase, in Complex with S-Adenosyl-L-Homocysteine and Sugar Product==		==X-ray Structure of the H181N mutant of TcaB9, a C-3'-Methyltransferase, in Complex with S-Adenosyl-L-Homocysteine and Sugar Product==
	<StructureSection load='4e2w' size='340' side='right' caption='[[4e2w]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4e2w' size='340' side='right'caption='[[4e2w]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e2w]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"micromonospora_chalcease"_(sic)_(foulerton_1905)_orskov_1923 "micromonospora chalcease" (sic) (foulerton 1905) orskov 1923~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4E2W FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e2w]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Micromonospora_chalcea Micromonospora chalcea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E2W FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=JHZ:(2R,4S,6R)-4-~~AMINO~~-4,6-~~DIMETHYL~~-5-~~OXOTETRAHYDRO~~-2H-~~PYRAN~~-2-YL+[(2R,3S,5R)-3-~~HYDROXY~~-5-(5-~~METHYL~~-2,4-~~DIOXO~~-3,4-~~DIHYDROPYRIMIDIN~~-1(2H)-YL)~~TETRAHYDROFURAN~~-2-YL]~~METHYL~~+~~DIHYDROGEN~~+~~DIPHOSPHATE~~+(~~NON~~-~~PREFERRED~~+~~NAME~~)'>JHZ</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>~~</td></tr>~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=JHZ:(2R,4S,6R)-4-amino-4,6-dimethyl-5-oxotetrahydro-2H-pyran-2-yl+[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl+dihydrogen+diphosphate+(non-preferred+name)'>JHZ</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4e2x\|4e2x]], [[4e2y\|4e2y]], [[4e2z\|4e2z]], [[4e30\|4e30]], [[4e31\|4e31]], [[4e32\|4e32]], [[4e33\|4e33]]</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=4e2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e2w OCA], [https://pdbe.org/4e2w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e2w RCSB], [https://www.ebi.ac.uk/pdbsum/4e2w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e2w ProSAT]</span></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tcab9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1874 "Micromonospora chalcease" (sic) (Foulerton 1905) Orskov 1923])</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=4e2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e2w OCA], [~~http~~://pdbe.org/4e2w PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4e2w RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4e2w PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4e2w ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[[https://www.uniprot.org/uniprot/B5L6K6_MICCH B5L6K6_MICCH]]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Bruender, N A~~]]		[[Category: Large Structures]]
	[[Category: ~~Holden, H M~~]]		[[Category: Micromonospora chalcea]]
	[[Category: ~~Keto sugar~~]]		[[Category: Bruender NA]]
	[[Category: ~~Kijanose]]~~		[[Category: Holden HM]]
	~~[[Category: Sugar methylation]]~~
	~~[[Category: Tetradeoxy sugar]]~~
	~~[[Category: Tetronitrose]]~~
	~~[[Category: Transferase~~]]

OCA at 07:41, 11 August 2016

2016-08-11T07:41:30Z

← Older revision		Revision as of 07:41, 11 August 2016
Line 1:		Line 1:

	==X-ray Structure of the H181N mutant of TcaB9, a C-3'-Methyltransferase, in Complex with S-Adenosyl-L-Homocysteine and Sugar Product==		==X-ray Structure of the H181N mutant of TcaB9, a C-3'-Methyltransferase, in Complex with S-Adenosyl-L-Homocysteine and Sugar Product==
	<StructureSection load='4e2w' size='340' side='right' caption='[[4e2w]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4e2w' size='340' side='right' caption='[[4e2w]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e2w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Micromonospora_chalcea Micromonospora chalcea~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E2W FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e2w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"micromonospora_chalcease"_(sic)_(foulerton_1905)_orskov_1923 "micromonospora chalcease" (sic) (foulerton 1905) orskov 1923]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E2W FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=JHZ:(2R,4S,6R)-4-AMINO-4,6-DIMETHYL-5-OXOTETRAHYDRO-2H-PYRAN-2-YL+[(2R,3S,5R)-3-HYDROXY-5-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)TETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE+(NON-PREFERRED+NAME)'>JHZ</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=JHZ:(2R,4S,6R)-4-AMINO-4,6-DIMETHYL-5-OXOTETRAHYDRO-2H-PYRAN-2-YL+[(2R,3S,5R)-3-HYDROXY-5-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)TETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE+(NON-PREFERRED+NAME)'>JHZ</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4e2x\|4e2x]], [[4e2y\|4e2y]], [[4e2z\|4e2z]], [[4e30\|4e30]], [[4e31\|4e31]], [[4e32\|4e32]], [[4e33\|4e33]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4e2x\|4e2x]], [[4e2y\|4e2y]], [[4e2z\|4e2z]], [[4e30\|4e30]], [[4e31\|4e31]], [[4e32\|4e32]], [[4e33\|4e33]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tcab9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1874 Micromonospora ~~chalcea~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tcab9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1874 "Micromonospora chalcease" (sic) (Foulerton 1905) Orskov 1923])</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=4e2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e2w OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e2w RCSB], [http://www.ebi.ac.uk/pdbsum/4e2w 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=4e2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e2w OCA], [http://pdbe.org/4e2w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4e2w RCSB], [http://www.ebi.ac.uk/pdbsum/4e2w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4e2w 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 4e2w" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Micromonospora chalcea]]~~
	[[Category: Bruender, N A]]		[[Category: Bruender, N A]]
	[[Category: Holden, H M]]		[[Category: Holden, H M]]

OCA at 12:56, 4 January 2015

2015-01-04T12:56:33Z

← Older revision		Revision as of 12:56, 4 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e2w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Micromonospora_chalcea Micromonospora chalcea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E2W FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e2w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Micromonospora_chalcea Micromonospora chalcea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E2W FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=JHZ:(2R,4S,6R)-4-AMINO-4,6-DIMETHYL-5-OXOTETRAHYDRO-2H-PYRAN-2-YL+[(2R,3S,5R)-3-HYDROXY-5-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)TETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE+(NON-PREFERRED+NAME)'>JHZ</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=JHZ:(2R,4S,6R)-4-AMINO-4,6-DIMETHYL-5-OXOTETRAHYDRO-2H-PYRAN-2-YL+[(2R,3S,5R)-3-HYDROXY-5-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)TETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE+(NON-PREFERRED+NAME)'>JHZ</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4e2x\|4e2x]], [[4e2y\|4e2y]], [[4e2z\|4e2z]], [[4e30\|4e30]], [[4e31\|4e31]], [[4e32\|4e32]], [[4e33\|4e33]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4e2x\|4e2x]], [[4e2y\|4e2y]], [[4e2z\|4e2z]], [[4e30\|4e30]], [[4e31\|4e31]], [[4e32\|4e32]], [[4e33\|4e33]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tcab9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1874 Micromonospora chalcea])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tcab9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1874 Micromonospora chalcea])</td></tr>
	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4e2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e2w OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e2w RCSB], [http://www.ebi.ac.uk/pdbsum/4e2w 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=4e2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e2w OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e2w RCSB], [http://www.ebi.ac.uk/pdbsum/4e2w PDBsum]</span></td></tr>
	<table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Micromonospora chalcea]]		[[Category: Micromonospora chalcea]]
	[[Category: Bruender, N A.]]		[[Category: Bruender, N A]]
	[[Category: Holden, H M.]]		[[Category: Holden, H M]]
	[[Category: Keto sugar]]		[[Category: Keto sugar]]
	[[Category: Kijanose]]		[[Category: Kijanose]]

OCA at 07:52, 5 June 2014

2014-06-05T07:52:52Z

← Older revision		Revision as of 07:52, 5 June 2014
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	[[~~Image~~:~~4e2w~~.~~png~~\|~~left~~\|~~200px~~]]		==X-ray Structure of the H181N mutant of TcaB9, a C-3'-Methyltransferase, in Complex with S-Adenosyl-L-Homocysteine and Sugar Product==
			<StructureSection load='4e2w' size='340' side='right' caption='[[4e2w]], [[Resolution\|resolution]] 1.50Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4e2w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Micromonospora_chalcea Micromonospora chalcea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E2W FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=JHZ:(2R,4S,6R)-4-AMINO-4,6-DIMETHYL-5-OXOTETRAHYDRO-2H-PYRAN-2-YL+[(2R,3S,5R)-3-HYDROXY-5-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)TETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE+(NON-PREFERRED+NAME)'>JHZ</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4e2x\|4e2x]], [[4e2y\|4e2y]], [[4e2z\|4e2z]], [[4e30\|4e30]], [[4e31\|4e31]], [[4e32\|4e32]], [[4e33\|4e33]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tcab9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1874 Micromonospora chalcea])</td></tr>
			<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4e2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e2w OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e2w RCSB], [http://www.ebi.ac.uk/pdbsum/4e2w PDBsum]</span></td></tr>
			<table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			d-Tetronitrose is a nitro-containing tetradeoxysugar found attached to the antitumor and antibacterial agent tetrocarcin A. The biosynthesis of this highly unusual sugar in Micromonospora chalcea requires ten enzymes. The fifth step in the pathway involves the transfer of a methyl group from S-adenosyl-l-methionine (SAM) to the C-3' carbon of dTDP-3-amino-2,3,6-trideoxy-4-keto-d-glucose. The enzyme responsible for this transformation is referred to as TcaB9. It is a monomeric enzyme with a molecular architecture based around three domains. The N-terminal motif contains a binding site for a structural zinc ion. The middle- and C-terminal domains serve to anchor the SAM and dTDP-sugar ligands, respectively, to the protein, and the active site of TcaB9 is wedged between these two regions. For this investigation, the roles of Tyr 76, His 181, Tyr 222, Glu 224, and His 225, which form the active site of TcaB9, were probed by site-directed mutagenesis, kinetic analyses, and X-ray structural studies. In addition, two ternary complexes of the enzyme with bound S-adenosyl-l-homocysteine and either dTDP-3-amino-2,3,6-trideoxy-4-keto-d-glucose or dTDP-3-amino-2,3,6-trideoxy-d-galactose were determined to 1.5-A or 1.6-A resolution, respectively. Taken together, these investigations highlight the important role of His 225 in methyl transfer. In addition, the structural data suggest that the methylation reaction occurs via retention of configuration about the C-3' carbon of the sugar.

	<!--		Probing the catalytic mechanism of a C-3'-methyltransferase involved in the biosynthesis of D-tetronitrose.,Bruender NA, Holden HM Protein Sci. 2012 Apr 11. doi: 10.1002/pro.2074. PMID:22495991<ref>PMID:22495991</ref>
	~~The line below this paragraph~~, ~~containing "STRUCTURE_4e2w"~~, ~~creates the "Structure Box" on the page~~.
	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~
	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~
	~~or leave the SCENE parameter empty for the default display~~.
	-->
	~~{{STRUCTURE_4e2w\| PDB=4e2w \| SCENE= }}~~

	~~===X-ray Structure of the H181N mutant of TcaB9~~, a ~~C-3'-Methyltransferase, in Complex with S-Adenosyl-L-Homocysteine and Sugar Product===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			== References ==
	~~<!--~~		<references/>
	~~The line below this paragraph, {{ABSTRACT_PUBMED_22495991}}, adds~~ the ~~Publication Abstract to the page~~		__TOC__
	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 22495991 is the PubMed ID number~~.		</StructureSection>
	-->
	~~{{ABSTRACT_PUBMED_22495991}}~~

	~~==About this Structure==~~
	~~[[4e2w]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Micromonospora_chalcea Micromonospora chalcea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E2W OCA].~~

	==~~Reference~~==
	<~~ref group="xtra">PMID:022495991<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Micromonospora chalcea]]		[[Category: Micromonospora chalcea]]
	[[Category: Bruender, N A.]]		[[Category: Bruender, N A.]]

OCA at 04:46, 30 May 2012

2012-05-30T04:46:53Z

← Older revision		Revision as of 04:46, 30 May 2012
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	[[Image:4e2w.~~jpg~~\|left\|200px]]		[[Image:4e2w.png\|left\|200px]]

	<!--		<!--

OCA at 09:10, 25 April 2012

2012-04-25T09:10:36Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+[[Image:4e2w.jpg|left|200px]]
-The entry 4e2w is ON HOLD  until Paper Publication
+<!--
-Authors: Bruender, N.A., Holden, H.M.
+===X-ray Structure of the H181N mutant of TcaB9, a C-3'-Methyltransferase, in Complex with S-Adenosyl-L-Homocysteine and Sugar Product===
-Description: X-ray Structure of the H181N mutant of TcaB9, a C-3'-Methyltransferase, in Complex with S-Adenosyl-L-Homocysteine and Sugar Product

OCA: Protected "4e2w" [edit=sysop:move=sysop]

2012-03-21T07:15:15Z

Protected "4e2w" [edit=sysop:move=sysop]

← Older revision	Revision as of 07:15, 21 March 2012
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4e2w is ON HOLD until Paper Publication Authors: Bruender, N.A., Holden, H.M. Description: X-ray Structure of the H181N mutant of TcaB9, a C-3'-Met...

2012-03-21T07:15:13Z

New page: '''Unreleased structure''' The entry 4e2w is ON HOLD until Paper Publication Authors: Bruender, N.A., Holden, H.M. Description: X-ray Structure of the H181N mutant of TcaB9, a C-3'-Met...

New page

'''Unreleased structure'''

The entry 4e2w is ON HOLD until Paper Publication

Authors: Bruender, N.A., Holden, H.M.

Description: X-ray Structure of the H181N mutant of TcaB9, a C-3'-Methyltransferase, in Complex with S-Adenosyl-L-Homocysteine and Sugar Product