3vew - Revision history

OCA at 14:26, 14 March 2024

OCA — Thu, 14 Mar 2024 14:26:31 GMT

←Older revision		Revision as of 14:26, 14 March 2024
Line 3:		Line 3:
	<StructureSection load='3vew' size='340' side='right'caption='[[3vew]], [[Resolution\|resolution]] 2.35Å' scene=''>		<StructureSection load='3vew' size='340' side='right'caption='[[3vew]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vew]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"streptomyces_tenebrarius"_higgins_and_kastner_(1968) "streptomyces~~ tenebrarius~~" higgins and kastner (1968)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VEW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vew]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptoalloteichus_tenebrarius Streptoalloteichus tenebrarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VEW FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ADP:ADENOSINE~~-~~5-DIPHOSPHATE'>ADP</scene>~~, ~~<scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.352Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[3ven\|3ven]], [[3veo\|3veo]], [[3ver\|3ver]], [[3ves\|3ves]], [[3vet\|3vet]], [[3vex\|3vex]], [[3vez\|3vez]], [[3vf2\|3vf2]], [[3vf4\|3vf4]]~~</~~div~~><~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">tacA, tobZ ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1933 "Streptomyces tenebrarius" Higgins and Kastner (1968)])~~</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=3vew FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vew OCA], [https://pdbe.org/3vew PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vew RCSB], [https://www.ebi.ac.uk/pdbsum/3vew PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vew 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=3vew FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vew OCA], [https://pdbe.org/3vew PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vew RCSB], [https://www.ebi.ac.uk/pdbsum/3vew PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vew ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/TOBZ_STRSD TOBZ_STRSD]] TobZ is involved in the biosynthesis of the 2-deoxystreptamine-containing aminoglycoside antibiotics such as nebramycin 5 and 6-O-carbamoylkanamycin. Catalyzes the hydrolysis of carbamoyl phosphate and its subsequent adenylation by ATP to yield O-carbamoyladenylate. Then it catalyzes the transfer of the carbamoyl moiety from O-carbamoyladenylate to the tobramycin 6-hydroxy group to yield nebramycin 5. It catalyzes the same reaction with kanamycin A. These reactions are considerably slower in the presence of deoxy-ATP.<ref>PMID:20936279</ref> <ref>PMID:22383337</ref>	+	[https://www.uniprot.org/uniprot/TOBZ_STRSD TOBZ_STRSD] TobZ is involved in the biosynthesis of the 2-deoxystreptamine-containing aminoglycoside antibiotics such as nebramycin 5 and 6-O-carbamoylkanamycin. Catalyzes the hydrolysis of carbamoyl phosphate and its subsequent adenylation by ATP to yield O-carbamoyladenylate. Then it catalyzes the transfer of the carbamoyl moiety from O-carbamoyladenylate to the tobramycin 6-hydroxy group to yield nebramycin 5. It catalyzes the same reaction with kanamycin A. These reactions are considerably slower in the presence of deoxy-ATP.<ref>PMID:20936279</ref> <ref>PMID:22383337</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	An ancient reaction vessel: TobZ carbamoylates the antibiotic tobramycin to form nebramycin 5'. The YrdC-like domain (blue) catalyzes the formation of the novel intermediate carbamoyladenylate, which is channeled through a common "reaction chamber" to the Kae1-like domain (brown), site of carbamoyl transfer.	+
-		+
-	The O-Carbamoyltransferase TobZ Catalyzes an Ancient Enzymatic Reaction.,Parthier C, Gorlich S, Jaenecke F, Breithaupt C, Brauer U, Fandrich U, Clausnitzer D, Wehmeier UF, Bottcher C, Scheel D, Stubbs MT Angew Chem Int Ed Engl. 2012 Mar 1. doi: 10.1002/anie.201108896. PMID:22383337<ref>PMID:22383337</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3vew" style="background-color:#fffaf0;"></div~~>	+
	== References ==		== References ==
	<references/>		<references/>
Line 25:		Line 15:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Goerlich, S]]	+	[[Category: Streptoalloteichus tenebrarius]]
-	[[Category: Jaenecke, F]]	+	[[Category: Goerlich S]]
-	[[Category: Parthier, C]]	+	[[Category: Jaenecke F]]
-	[[Category: Stubbs~~, M T]]~~	+	[[Category: Parthier C]]
-	~~[[Category: Adenylation]]~~	+	[[Category: Stubbs MT]]
-	~~[[Category: Antibiotic biosynthesis]]~~	+
-	~~[[Category: Enzyme evolution]]~~	+
-	~~[[Category: Structural enzymology]]~~	+
-	~~[[Category: Substrate assisted catalysis]]~~	+
-	~~[[Category: Substrate channeling]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 18:41, 27 July 2022

OCA — Wed, 27 Jul 2022 18:41:43 GMT

←Older revision		Revision as of 18:41, 27 July 2022
Line 1:		Line 1:

	==Crystal structure of the O-carbamoyltransferase TobZ in complex with ADP==		==Crystal structure of the O-carbamoyltransferase TobZ in complex with ADP==
-	<StructureSection load='3vew' size='340' side='right' caption='[[3vew]], [[Resolution\|resolution]] 2.35Å' scene=''>	+	<StructureSection load='3vew' size='340' side='right'caption='[[3vew]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vew]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"streptomyces_tenebrarius"_higgins_and_kastner_(1968) "streptomyces tenebrarius" higgins and kastner (1968)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3VEW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vew]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"streptomyces_tenebrarius"_higgins_and_kastner_(1968) "streptomyces tenebrarius" higgins and kastner (1968)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VEW FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ven\|3ven]], [[3veo\|3veo]], [[3ver\|3ver]], [[3ves\|3ves]], [[3vet\|3vet]], [[3vex\|3vex]], [[3vez\|3vez]], [[3vf2\|3vf2]], [[3vf4\|3vf4]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ven\|3ven]], [[3veo\|3veo]], [[3ver\|3ver]], [[3ves\|3ves]], [[3vet\|3vet]], [[3vex\|3vex]], [[3vez\|3vez]], [[3vf2\|3vf2]], [[3vf4\|3vf4]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tacA, tobZ ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1933 "Streptomyces tenebrarius" Higgins and Kastner (1968)])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tacA, tobZ ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1933 "Streptomyces tenebrarius" Higgins and Kastner (1968)])</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=3vew FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vew OCA], [~~http~~://pdbe.org/3vew PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3vew RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3vew PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3vew 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=3vew FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vew OCA], [https://pdbe.org/3vew PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vew RCSB], [https://www.ebi.ac.uk/pdbsum/3vew PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vew ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/TOBZ_STRSD TOBZ_STRSD]] TobZ is involved in the biosynthesis of the 2-deoxystreptamine-containing aminoglycoside antibiotics such as nebramycin 5 and 6-O-carbamoylkanamycin. Catalyzes the hydrolysis of carbamoyl phosphate and its subsequent adenylation by ATP to yield O-carbamoyladenylate. Then it catalyzes the transfer of the carbamoyl moiety from O-carbamoyladenylate to the tobramycin 6-hydroxy group to yield nebramycin 5. It catalyzes the same reaction with kanamycin A. These reactions are considerably slower in the presence of deoxy-ATP.<ref>PMID:20936279</ref> <ref>PMID:22383337</ref>	+	[[https://www.uniprot.org/uniprot/TOBZ_STRSD TOBZ_STRSD]] TobZ is involved in the biosynthesis of the 2-deoxystreptamine-containing aminoglycoside antibiotics such as nebramycin 5 and 6-O-carbamoylkanamycin. Catalyzes the hydrolysis of carbamoyl phosphate and its subsequent adenylation by ATP to yield O-carbamoyladenylate. Then it catalyzes the transfer of the carbamoyl moiety from O-carbamoyladenylate to the tobramycin 6-hydroxy group to yield nebramycin 5. It catalyzes the same reaction with kanamycin A. These reactions are considerably slower in the presence of deoxy-ATP.<ref>PMID:20936279</ref> <ref>PMID:22383337</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Goerlich, S]]		[[Category: Goerlich, S]]
	[[Category: Jaenecke, F]]		[[Category: Jaenecke, F]]

OCA at 00:01, 5 August 2016

OCA — Fri, 05 Aug 2016 00:01:58 GMT

←Older revision		Revision as of 00:01, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of the O-carbamoyltransferase TobZ in complex with ADP==		==Crystal structure of the O-carbamoyltransferase TobZ in complex with ADP==
	<StructureSection load='3vew' size='340' side='right' caption='[[3vew]], [[Resolution\|resolution]] 2.35Å' scene=''>		<StructureSection load='3vew' size='340' side='right' caption='[[3vew]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vew]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptoalloteichus_tenebrarius Streptoalloteichus~~ tenebrarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VEW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vew]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"streptomyces_tenebrarius"_higgins_and_kastner_(1968) "streptomyces tenebrarius" higgins and kastner (1968)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VEW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ven\|3ven]], [[3veo\|3veo]], [[3ver\|3ver]], [[3ves\|3ves]], [[3vet\|3vet]], [[3vex\|3vex]], [[3vez\|3vez]], [[3vf2\|3vf2]], [[3vf4\|3vf4]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ven\|3ven]], [[3veo\|3veo]], [[3ver\|3ver]], [[3ves\|3ves]], [[3vet\|3vet]], [[3vex\|3vex]], [[3vez\|3vez]], [[3vf2\|3vf2]], [[3vf4\|3vf4]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tacA, tobZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1933 ~~Streptoalloteichus~~ tenebrarius])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tacA, tobZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1933 "Streptomyces tenebrarius" Higgins and Kastner (1968)])</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=3vew FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vew OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vew RCSB], [http://www.ebi.ac.uk/pdbsum/3vew 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=3vew FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vew OCA], [http://pdbe.org/3vew PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3vew RCSB], [http://www.ebi.ac.uk/pdbsum/3vew PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3vew ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~Q70IY1_STRSD Q70IY1_STRSD~~]] TobZ is involved in the biosynthesis of the 2-deoxystreptamine-containing aminoglycoside antibiotics such as nebramycin 5 and 6-O-carbamoylkanamycin. Catalyzes the hydrolysis of carbamoyl phosphate and its subsequent adenylation by ATP to yield O-carbamoyladenylate. Then it catalyzes the transfer of the carbamoyl moiety from O-carbamoyladenylate to the tobramycin 6-hydroxy group to yield nebramycin 5. It catalyzes the same reaction with kanamycin A. These reactions are considerably slower in the presence of deoxy-ATP.<ref>PMID:20936279</ref> <ref>PMID:22383337</ref>	+	[[http://www.uniprot.org/uniprot/TOBZ_STRSD TOBZ_STRSD]] TobZ is involved in the biosynthesis of the 2-deoxystreptamine-containing aminoglycoside antibiotics such as nebramycin 5 and 6-O-carbamoylkanamycin. Catalyzes the hydrolysis of carbamoyl phosphate and its subsequent adenylation by ATP to yield O-carbamoyladenylate. Then it catalyzes the transfer of the carbamoyl moiety from O-carbamoyladenylate to the tobramycin 6-hydroxy group to yield nebramycin 5. It catalyzes the same reaction with kanamycin A. These reactions are considerably slower in the presence of deoxy-ATP.<ref>PMID:20936279</ref> <ref>PMID:22383337</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 19:
	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 3vew" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Streptoalloteichus tenebrarius]]
	[[Category: Goerlich, S]]		[[Category: Goerlich, S]]
	[[Category: Jaenecke, F]]		[[Category: Jaenecke, F]]

OCA at 20:59, 24 December 2014

OCA — Wed, 24 Dec 2014 20:59:15 GMT

←Older revision		Revision as of 20:59, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3vew]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptoalloteichus_tenebrarius Streptoalloteichus tenebrarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VEW FirstGlance]. <br>		<table><tr><td colspan='2'>[[3vew]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptoalloteichus_tenebrarius Streptoalloteichus tenebrarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VEW FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ven\|3ven]], [[3veo\|3veo]], [[3ver\|3ver]], [[3ves\|3ves]], [[3vet\|3vet]], [[3vex\|3vex]], [[3vez\|3vez]], [[3vf2\|3vf2]], [[3vf4\|3vf4]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ven\|3ven]], [[3veo\|3veo]], [[3ver\|3ver]], [[3ves\|3ves]], [[3vet\|3vet]], [[3vex\|3vex]], [[3vez\|3vez]], [[3vf2\|3vf2]], [[3vf4\|3vf4]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tacA, tobZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1933 Streptoalloteichus tenebrarius])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tacA, tobZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1933 Streptoalloteichus tenebrarius])</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=3vew FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vew OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vew RCSB], [http://www.ebi.ac.uk/pdbsum/3vew 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=3vew FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vew OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vew RCSB], [http://www.ebi.ac.uk/pdbsum/3vew PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Q70IY1_STRSD Q70IY1_STRSD]] TobZ is involved in the biosynthesis of the 2-deoxystreptamine-containing aminoglycoside antibiotics such as nebramycin 5 and 6-O-carbamoylkanamycin. Catalyzes the hydrolysis of carbamoyl phosphate and its subsequent adenylation by ATP to yield O-carbamoyladenylate. Then it catalyzes the transfer of the carbamoyl moiety from O-carbamoyladenylate to the tobramycin 6-hydroxy group to yield nebramycin 5. It catalyzes the same reaction with kanamycin A. These reactions are considerably slower in the presence of deoxy-ATP.<ref>PMID:20936279</ref> <ref>PMID:22383337</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 16:
	The O-Carbamoyltransferase TobZ Catalyzes an Ancient Enzymatic Reaction.,Parthier C, Gorlich S, Jaenecke F, Breithaupt C, Brauer U, Fandrich U, Clausnitzer D, Wehmeier UF, Bottcher C, Scheel D, Stubbs MT Angew Chem Int Ed Engl. 2012 Mar 1. doi: 10.1002/anie.201108896. PMID:22383337<ref>PMID:22383337</ref>		The O-Carbamoyltransferase TobZ Catalyzes an Ancient Enzymatic Reaction.,Parthier C, Gorlich S, Jaenecke F, Breithaupt C, Brauer U, Fandrich U, Clausnitzer D, Wehmeier UF, Bottcher C, Scheel D, Stubbs MT Angew Chem Int Ed Engl. 2012 Mar 1. doi: 10.1002/anie.201108896. PMID:22383337<ref>PMID:22383337</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 21:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Streptoalloteichus tenebrarius]]		[[Category: Streptoalloteichus tenebrarius]]
-	[[Category: Goerlich, S.]]	+	[[Category: Goerlich, S]]
-	[[Category: Jaenecke, F.]]	+	[[Category: Jaenecke, F]]
-	[[Category: Parthier, C.]]	+	[[Category: Parthier, C]]
-	[[Category: Stubbs, M T.]]	+	[[Category: Stubbs, M T]]
	[[Category: Adenylation]]		[[Category: Adenylation]]
	[[Category: Antibiotic biosynthesis]]		[[Category: Antibiotic biosynthesis]]

OCA at 07:20, 5 June 2014

OCA — Thu, 05 Jun 2014 07:20:10 GMT

←Older revision		Revision as of 07:20, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3vew.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of the O-carbamoyltransferase TobZ in complex with ADP==
		+	<StructureSection load='3vew' size='340' side='right' caption='[[3vew]], [[Resolution\|resolution]] 2.35Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3vew]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptoalloteichus_tenebrarius Streptoalloteichus tenebrarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VEW FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ven\|3ven]], [[3veo\|3veo]], [[3ver\|3ver]], [[3ves\|3ves]], [[3vet\|3vet]], [[3vex\|3vex]], [[3vez\|3vez]], [[3vf2\|3vf2]], [[3vf4\|3vf4]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tacA, tobZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1933 Streptoalloteichus tenebrarius])</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=3vew FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vew OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vew RCSB], [http://www.ebi.ac.uk/pdbsum/3vew PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	An ancient reaction vessel: TobZ carbamoylates the antibiotic tobramycin to form nebramycin 5'. The YrdC-like domain (blue) catalyzes the formation of the novel intermediate carbamoyladenylate, which is channeled through a common "reaction chamber" to the Kae1-like domain (brown), site of carbamoyl transfer.

-	~~<!--~~	+	The O-Carbamoyltransferase TobZ Catalyzes an Ancient Enzymatic Reaction.,Parthier C, Gorlich S, Jaenecke F, Breithaupt C, Brauer U, Fandrich U, Clausnitzer D, Wehmeier UF, Bottcher C, Scheel D, Stubbs MT Angew Chem Int Ed Engl. 2012 Mar 1. doi: 10.1002/anie.201108896. PMID:22383337<ref>PMID:22383337</ref>
-	The ~~line below this paragraph~~, ~~containing "STRUCTURE_3vew"~~, ~~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_3vew\| PDB=3vew \| SCENE= }}~~	+

-	~~===Crystal structure~~ of the ~~O-carbamoyltransferase TobZ in complex with ADP===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_22383337}}, adds the Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 22383337 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_22383337}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3vew]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Streptoalloteichus_tenebrarius Streptoalloteichus tenebrarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:022383337<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Streptoalloteichus tenebrarius]]		[[Category: Streptoalloteichus tenebrarius]]
	[[Category: Goerlich, S.]]		[[Category: Goerlich, S.]]

OCA at 05:44, 14 March 2012

OCA — Wed, 14 Mar 2012 05:44:22 GMT

←Older revision		Revision as of 05:44, 14 March 2012
Line 11:		Line 11:
	===Crystal structure of the O-carbamoyltransferase TobZ in complex with ADP===		===Crystal structure of the O-carbamoyltransferase TobZ in complex with ADP===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_22383337}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 22383337 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_22383337}}

	==About this Structure==		==About this Structure==
	[[3vew]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptoalloteichus_tenebrarius Streptoalloteichus tenebrarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA].		[[3vew]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptoalloteichus_tenebrarius Streptoalloteichus tenebrarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022383337</ref><references group="xtra"/>
	[[Category: Streptoalloteichus tenebrarius]]		[[Category: Streptoalloteichus tenebrarius]]
	[[Category: Goerlich, S.]]		[[Category: Goerlich, S.]]

OCA at 07:33, 1 February 2012

OCA — Wed, 01 Feb 2012 07:33:00 GMT

←Older revision		Revision as of 07:33, 1 February 2012
Line 1:		Line 1:
-	[[Image:3vew.~~jpg~~\|left\|200px]]	+	[[Image:3vew.png\|left\|200px]]

	<!--		<!--

OCA at 06:49, 25 January 2012

OCA — Wed, 25 Jan 2012 06:49:43 GMT

←Older revision		Revision as of 06:49, 25 January 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3vew.jpg\|left\|200px]]

-	The ~~entry 3vew~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3vew", 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_3vew\| PDB=3vew \| SCENE= }}

-	~~Authors: Parthier, C., Stubbs, M.T., Goerlich, S., Jaenecke, F.~~	+	===Crystal structure of the O-carbamoyltransferase TobZ in complex with ADP===

-	~~Description: Crystal~~ structure ~~of the O-carbamoyltransferase TobZ in complex~~ with ~~ADP~~	+
		+	==About this Structure==
		+	[[3vew]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptoalloteichus_tenebrarius Streptoalloteichus tenebrarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VEW OCA].
		+	[[Category: Streptoalloteichus tenebrarius]]
		+	[[Category: Goerlich, S.]]
		+	[[Category: Jaenecke, F.]]
		+	[[Category: Parthier, C.]]
		+	[[Category: Stubbs, M T.]]
		+	[[Category: Adenylation]]
		+	[[Category: Antibiotic biosynthesis]]
		+	[[Category: Enzyme evolution]]
		+	[[Category: Structural enzymology]]
		+	[[Category: Substrate assisted catalysis]]
		+	[[Category: Substrate channeling]]
		+	[[Category: Transferase]]

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

OCA — Wed, 18 Jan 2012 10:21:16 GMT

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

←Older revision

Revision as of 10:21, 18 January 2012

OCA: New page: '''Unreleased structure''' The entry 3vew is ON HOLD Authors: Parthier, C., Stubbs, M.T., Goerlich, S., Jaenecke, F. Description: Crystal structure of the O-carbamoyltransferase TobZ i...

OCA — Wed, 18 Jan 2012 10:21:14 GMT

New page: '''Unreleased structure''' The entry 3vew is ON HOLD Authors: Parthier, C., Stubbs, M.T., Goerlich, S., Jaenecke, F. Description: Crystal structure of the O-carbamoyltransferase TobZ i...

New page

'''Unreleased structure'''

The entry 3vew is ON HOLD

Authors: Parthier, C., Stubbs, M.T., Goerlich, S., Jaenecke, F.

Description: Crystal structure of the O-carbamoyltransferase TobZ in complex with ADP