3rcb - Revision history

OCA at 12:18, 14 March 2024

2024-03-14T12:18:27Z

←Older revision		Revision as of 12:18, 14 March 2024
Line 3:		Line 3:
	<StructureSection load='3rcb' size='340' side='right'caption='[[3rcb]], [[Resolution\|resolution]] 2.49Å' scene=''>		<StructureSection load='3rcb' size='340' side='right'caption='[[3rcb]], [[Resolution\|resolution]] 2.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3rcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Actki Actki~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RCB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3rcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Actinomadura_kijaniata Actinomadura kijaniata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RCB FirstGlance]. <br>
-	</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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=TLO:5-O-[(S)-HYDROXY{[(S)-HYDROXY(PHENOXY)PHOSPHORYL]OXY}PHOSPHORYL]THYMIDINE'>TLO</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]] 2.49Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3rc1\|3rc1]], [[3rc2\|3rc2]], [[3rc7\|3rc7]], [[3rc9\|3rc9]], [[3rbv\|3rbv]]</div></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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=TLO:5-O-[(S)-HYDROXY{[(S)-HYDROXY(PHENOXY)PHOSPHORYL]OXY}PHOSPHORYL]THYMIDINE'>TLO</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KijD10 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=46161 ACTKI])~~</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=3rcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rcb OCA], [https://pdbe.org/3rcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rcb RCSB], [https://www.ebi.ac.uk/pdbsum/3rcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rcb 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=3rcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rcb OCA], [https://pdbe.org/3rcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rcb RCSB], [https://www.ebi.ac.uk/pdbsum/3rcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rcb ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/KIJDR_ACTKI KIJDR_ACTKI] Involved in the biosynthesis of L-digitoxose, an unusual dideoxysugar attached to various pharmacologically active natural products, including the antitumor antibiotic tetrocarcin A, and the antibiotics kijanimicin and jadomycin B. Catalyzes the reduction of the C-3 keto moiety of dTDP-3,4-diketo-2,6-dideoxy-alpha-D-glucose to yield dTDP-4-keto-2,6-dideoxy-alpha-D-glucose. Also able to reduce dTDP-3-keto-6-deoxy-D-galactose and dTDP-3-keto-6-deoxy-D-glucose to yield dTDP-fucose and dTDP-quinovose, respectively.<ref>PMID:21598943</ref>
-	L-digitoxose is an unusual dideoxysugar ~~found~~ attached to various pharmacologically active natural products including the antitumor antibiotic tetrocarcin A, and the antibiotics kijanimicin and jadomycin B. ~~Six enzymes are required for its production starting from glucose-1-phosphate. Here we describe a combined structural and functional investigation~~ of ~~KijD10, an NADPH-dependent~~ C-3~~'' ketoreductase that catalyzes the third step~~ of L-~~digitoxose biosynthesis in the African soil~~-~~dwelling bacterium Actinomadura kijaniata. KijD10 belongs to the glucose~~-~~fructose oxidoreductase (GFOR) superfamily. For this investigation both binary and ternary complexes of KijD10 were crystallized~~, ~~and their structures determined~~ to 2~~.0 A resolution or better. On the basis of these high resolution structures~~, two potential active site acids were identified, Lys 102 and Tyr 186. These residues were individually mutated, and the resultant proteins investigated both kinetically and structurally. The Y186F mutant protein demonstrated significant catalytic activity, and its structure was virtually identical to that of the wild-~~type enzyme except for the positioning of the nicotinamide ring~~. All lysine mutations, on the other hand, resulted in proteins with either abolished or drastically reduced catalytic activities. Structures for the K102A and K102E mutant proteins were determined and showed that the abrogation in catalytic activity was not a result of large conformational changes. Taken together these data suggest that Lys 102 donates a proton to ~~the C~~-3~~'' hydroxyl group during the reaction and that Tyr 186 serves only an auxiliary role. This is in contrast to that proposed for glucose~~-~~fructose oxidoreductase~~ and ~~other family members where the tyrosines, or in some cases similarly positioned histidines, are thought to play major catalytic roles.~~	+
-		+
-	~~A Combined Structural and Functional Investigation of a C~~-3''-~~Ketoreductase Involved in the Biosynthesis of~~ dTDP-L-~~Digitoxose.~~,~~Kubiak RL, Holden HM Biochemistry~~. ~~2011 May 20. PMID:21598943~~<ref>PMID:21598943</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3rcb" style="background-color:#fffaf0;"></div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Actki~~]]	+	[[Category: Actinomadura kijaniata]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Holden~~, H M~~]]	+	[[Category: Holden HM]]
-	[[Category: Kubiak~~, R L]]~~	+	[[Category: Kubiak RL]]
-	~~[[Category: Ketoreductase]]~~	+
-	~~[[Category: Nadp binding]]~~	+
-	~~[[Category: Sugar binding protein]]~~	+
-	~~[[Category: Sugar biosynthesis]]~~	+
-	~~[[Category: Tdp binding~~]]	+

OCA at 05:57, 15 June 2022

2022-06-15T05:57:40Z

←Older revision		Revision as of 05:57, 15 June 2022
Line 1:		Line 1:

	==Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP==		==Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP==
-	<StructureSection load='3rcb' size='340' side='right' caption='[[3rcb]], [[Resolution\|resolution]] 2.49Å' scene=''>	+	<StructureSection load='3rcb' size='340' side='right'caption='[[3rcb]], [[Resolution\|resolution]] 2.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3rcb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_31588 Atcc 31588~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RCB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3RCB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3rcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Actki Actki]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RCB 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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=TLO:5-O-[(S)-HYDROXY{[(S)-HYDROXY(PHENOXY)PHOSPHORYL]OXY}PHOSPHORYL]THYMIDINE'>TLO</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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=TLO:5-O-[(S)-HYDROXY{[(S)-HYDROXY(PHENOXY)PHOSPHORYL]OXY}PHOSPHORYL]THYMIDINE'>TLO</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3rc1\|3rc1]], [[3rc2\|3rc2]], [[3rc7\|3rc7]], [[3rc9\|3rc9]], [[3rbv\|3rbv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3rc1\|3rc1]], [[3rc2\|3rc2]], [[3rc7\|3rc7]], [[3rc9\|3rc9]], [[3rbv\|3rbv]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KijD10 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=46161 ~~ATCC 31588~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KijD10 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=46161 ACTKI])</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=3rcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rcb OCA], [~~http~~://pdbe.org/3rcb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3rcb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3rcb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3rcb 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=3rcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rcb OCA], [https://pdbe.org/3rcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rcb RCSB], [https://www.ebi.ac.uk/pdbsum/3rcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rcb ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 31588~~]]	+	[[Category: Actki]]
		+	[[Category: Large Structures]]
	[[Category: Holden, H M]]		[[Category: Holden, H M]]
	[[Category: Kubiak, R L]]		[[Category: Kubiak, R L]]

OCA at 00:30, 5 August 2016

2016-08-05T00:30:39Z

←Older revision		Revision as of 00:30, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP==		==Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP==
	<StructureSection load='3rcb' size='340' side='right' caption='[[3rcb]], [[Resolution\|resolution]] 2.49Å' scene=''>		<StructureSection load='3rcb' size='340' side='right' caption='[[3rcb]], [[Resolution\|resolution]] 2.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3rcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Actinomadura_kijaniata Actinomadura kijaniata~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RCB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3rcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_31588 Atcc 31588]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RCB 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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=TLO:5-O-[(S)-HYDROXY{[(S)-HYDROXY(PHENOXY)PHOSPHORYL]OXY}PHOSPHORYL]THYMIDINE'>TLO</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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=TLO:5-O-[(S)-HYDROXY{[(S)-HYDROXY(PHENOXY)PHOSPHORYL]OXY}PHOSPHORYL]THYMIDINE'>TLO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3rc1\|3rc1]], [[3rc2\|3rc2]], [[3rc7\|3rc7]], [[3rc9\|3rc9]], [[3rbv\|3rbv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3rc1\|3rc1]], [[3rc2\|3rc2]], [[3rc7\|3rc7]], [[3rc9\|3rc9]], [[3rbv\|3rbv]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KijD10 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=46161 ~~Actinomadura kijaniata~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KijD10 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=46161 ATCC 31588])</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=3rcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rcb RCSB], [http://www.ebi.ac.uk/pdbsum/3rcb 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=3rcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rcb OCA], [http://pdbe.org/3rcb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3rcb RCSB], [http://www.ebi.ac.uk/pdbsum/3rcb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3rcb 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 3rcb" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Actinomadura kijaniata~~]]	+	[[Category: Atcc 31588]]
	[[Category: Holden, H M]]		[[Category: Holden, H M]]
	[[Category: Kubiak, R L]]		[[Category: Kubiak, R L]]

OCA at 10:38, 19 December 2014

2014-12-19T10:38:00Z

←Older revision		Revision as of 10:38, 19 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3rcb\| PDB=3rcb \| SCENE= }}~~	+	==Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP==
-	===Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP===	+	<StructureSection load='3rcb' size='340' side='right' caption='[[3rcb]], [[Resolution\|resolution]] 2.49Å' scene=''>
-	{~~{ABSTRACT_PUBMED_21598943}~~}	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3rcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Actinomadura_kijaniata Actinomadura kijaniata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RCB 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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=TLO:5-O-[(S)-HYDROXY{[(S)-HYDROXY(PHENOXY)PHOSPHORYL]OXY}PHOSPHORYL]THYMIDINE'>TLO</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3rc1\|3rc1]], [[3rc2\|3rc2]], [[3rc7\|3rc7]], [[3rc9\|3rc9]], [[3rbv\|3rbv]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KijD10 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=46161 Actinomadura kijaniata])</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=3rcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rcb RCSB], [http://www.ebi.ac.uk/pdbsum/3rcb PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	L-digitoxose is an unusual dideoxysugar found attached to various pharmacologically active natural products including the antitumor antibiotic tetrocarcin A, and the antibiotics kijanimicin and jadomycin B. Six enzymes are required for its production starting from glucose-1-phosphate. Here we describe a combined structural and functional investigation of KijD10, an NADPH-dependent C-3'' ketoreductase that catalyzes the third step of L-digitoxose biosynthesis in the African soil-dwelling bacterium Actinomadura kijaniata. KijD10 belongs to the glucose-fructose oxidoreductase (GFOR) superfamily. For this investigation both binary and ternary complexes of KijD10 were crystallized, and their structures determined to 2.0 A resolution or better. On the basis of these high resolution structures, two potential active site acids were identified, Lys 102 and Tyr 186. These residues were individually mutated, and the resultant proteins investigated both kinetically and structurally. The Y186F mutant protein demonstrated significant catalytic activity, and its structure was virtually identical to that of the wild-type enzyme except for the positioning of the nicotinamide ring. All lysine mutations, on the other hand, resulted in proteins with either abolished or drastically reduced catalytic activities. Structures for the K102A and K102E mutant proteins were determined and showed that the abrogation in catalytic activity was not a result of large conformational changes. Taken together these data suggest that Lys 102 donates a proton to the C-3'' hydroxyl group during the reaction and that Tyr 186 serves only an auxiliary role. This is in contrast to that proposed for glucose-fructose oxidoreductase and other family members where the tyrosines, or in some cases similarly positioned histidines, are thought to play major catalytic roles.

-	~~==About this Structure==~~	+	A Combined Structural and Functional Investigation of a C-3''-Ketoreductase Involved in the Biosynthesis of dTDP-L-Digitoxose.,Kubiak RL, Holden HM Biochemistry. 2011 May 20. PMID:21598943<ref>PMID:21598943</ref>
-	~~[[3rcb]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Actinomadura_kijaniata Actinomadura kijaniata]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3RCB OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:021598943</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Actinomadura kijaniata]]		[[Category: Actinomadura kijaniata]]
-	[[Category: Holden, H M.]]	+	[[Category: Holden, H M]]
-	[[Category: Kubiak, R L.]]	+	[[Category: Kubiak, R L]]
	[[Category: Ketoreductase]]		[[Category: Ketoreductase]]
	[[Category: Nadp binding]]		[[Category: Nadp binding]]

OCA at 08:12, 16 May 2013

2013-05-16T08:12:18Z

←Older revision		Revision as of 08:12, 16 May 2013
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-	[[Image:3rcb.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3rcb", 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_3rcb\| PDB=3rcb \| SCENE= }}		{{STRUCTURE_3rcb\| PDB=3rcb \| SCENE= }}
-
	===Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP===		===Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP===
-
-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21598943}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21598943 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21598943}}		{{ABSTRACT_PUBMED_21598943}}

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	==Reference==		==Reference==
-	<ref group="xtra">PMID:021598943</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021598943</ref><references group="xtra"/><references/>
	[[Category: Actinomadura kijaniata]]		[[Category: Actinomadura kijaniata]]
	[[Category: Holden, H M.]]		[[Category: Holden, H M.]]

OCA at 08:03, 13 July 2011

2011-07-13T08:03:58Z

←Older revision		Revision as of 08:03, 13 July 2011
Line 1:		Line 1:
-	[[Image:3rcb.~~jpg~~\|left\|200px]]	+	[[Image:3rcb.png\|left\|200px]]

	<!--		<!--

OCA at 16:02, 22 June 2011

2011-06-22T16:02:55Z

←Older revision		Revision as of 16:02, 22 June 2011
Line 26:		Line 26:
	[[Category: Holden, H M.]]		[[Category: Holden, H M.]]
	[[Category: Kubiak, R L.]]		[[Category: Kubiak, R L.]]
		+	[[Category: Ketoreductase]]
		+	[[Category: Nadp binding]]
		+	[[Category: Sugar binding protein]]
		+	[[Category: Sugar biosynthesis]]
		+	[[Category: Tdp binding]]

OCA at 05:13, 8 June 2011

2011-06-08T05:13:47Z

←Older revision		Revision as of 05:13, 8 June 2011
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-	~~'''Unreleased structure'''~~	+	[[Image:3rcb.jpg\|left\|200px]]

-	The ~~entry 3rcb~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3rcb", 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_3rcb\| PDB=3rcb \| SCENE= }}

-	~~Authors: Holden~~, ~~H.M., Kubiak, R.L.~~	+	===Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP===

-	~~Description: Crystal structure of~~ the ~~K102E mutant of KijD10~~, ~~a 3~~-~~ketoreductase~~ from Actinomadura kijaniata ~~in complex with TDP~~-~~benzene and NADP~~	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21598943}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21598943 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21598943}}
		+
		+	==About this Structure==
		+	[[3rcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Actinomadura_kijaniata Actinomadura kijaniata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RCB OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021598943</ref><references group="xtra"/>
		+	[[Category: Actinomadura kijaniata]]
		+	[[Category: Holden, H M.]]
		+	[[Category: Kubiak, R L.]]

OCA: Protected "3rcb" [edit=sysop:move=sysop]

2011-04-06T08:43:28Z

Protected "3rcb" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:43, 6 April 2011

OCA: New page: '''Unreleased structure''' The entry 3rcb is ON HOLD Authors: Holden, H.M., Kubiak, R.L. Description: Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadu...

2011-04-06T08:43:27Z

New page: '''Unreleased structure''' The entry 3rcb is ON HOLD Authors: Holden, H.M., Kubiak, R.L. Description: Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadu...

New page

'''Unreleased structure'''

The entry 3rcb is ON HOLD

Authors: Holden, H.M., Kubiak, R.L.

Description: Crystal structure of the K102E mutant of KijD10, a 3-ketoreductase from Actinomadura kijaniata in complex with TDP-benzene and NADP