2qa1 - Revision history

OCA at 09:14, 21 February 2024

2024-02-21T09:14:48Z

←Older revision		Revision as of 09:14, 21 February 2024
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	<StructureSection load='2qa1' size='340' side='right'caption='[[2qa1]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2qa1' size='340' side='right'caption='[[2qa1]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qa1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_sp.~~_pga64~~ Streptomyces sp. ~~pga64~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QA1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qa1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_sp._PGA64 Streptomyces sp. PGA64]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QA1 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=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.8Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2qa2\|2qa2]]</div></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=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=161235 Streptomyces sp. PGA64])</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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [https://pdbe.org/2qa1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [https://www.ebi.ac.uk/pdbsum/2qa1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qa1 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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [https://pdbe.org/2qa1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [https://www.ebi.ac.uk/pdbsum/2qa1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qa1 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q93LY7_9ACTN Q93LY7_9ACTN]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2qa1 ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2qa1 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Angucyclines are aromatic polyketides produced in Streptomycetes via complex enzymatic biosynthetic pathways. PgaE and CabE from S. sp PGA64 and S. sp. H021 are two related homo-dimeric FAD and NADPH dependent aromatic hydroxylases involved in the early steps of the angucycline core modification. Here we report the three-dimensional structures of these two enzymes determined by X-ray crystallography using multiple anomalous diffraction and molecular replacement, respectively, to resolutions of 1.8 A and 2.7 A. The enzyme subunits are built up of three domains, a FAD binding domain, a domain involved in substrate binding and a C-terminal thioredoxin-like domain of unknown function. The structure analysis identifies PgaE and CabE as members of the para-hydroxybenzoate hydroxylase (pHBH) fold family of aromatic hydroxylases. In contrast to phenol hydroxylase and 3-hydroxybenzoate hydroxylase that utilize the C-terminal domain for dimer formation, this domain is not part of the subunit-subunit interface in PgaE and CabE. Instead, dimer assembly occurs through interactions of their FAD binding domains. FAD is bound non-covalently in the "in"-conformation. The active sites in the two enzymes differ significantly from those of other aromatic hydroxylases. The volumes of the active site are significantly larger, as expected in view of the voluminous tetracyclic angucycline substrates. The structures further suggest that substrate binding and catalysis may involve dynamic rearrangements of the middle domain relative to the other two domains. Site-directed mutagenesis studies of putative catalytic groups in the active site of PgaE argue against enzyme-catalyzed substrate deprotonation as a step in catalysis. This is in contrast to pHBH, where deprotonation/protonation of the substrate has been suggested as an essential part of the enzymatic mechanism.
-
-	Crystal structures of two aromatic hydroxylases involved in the early tailoring steps of angucycline biosynthesis.,Koskiniemi H, Metsa-Ketela M, Dobritzsch D, Kallio P, Korhonen H, Mantsala P, Schneider G, Niemi J J Mol Biol. 2007 Sep 21;372(3):633-48. Epub 2007 Jul 10. PMID:17669423<ref>PMID:17669423</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2qa1" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Streptomyces sp. ~~pga64~~]]	+	[[Category: Streptomyces sp. PGA64]]
-	[[Category: Dobritzsch, D]]	+	[[Category: Dobritzsch D]]
-	[[Category: Kallio, P]]	+	[[Category: Kallio P]]
-	[[Category: Koskiniemi, H]]	+	[[Category: Koskiniemi H]]
-	[[Category: Metsa-Ketela, M]]	+	[[Category: Metsa-Ketela M]]
-	[[Category: Niemi, J]]	+	[[Category: Niemi J]]
-	[[Category: Schneider, G]]	+	[[Category: Schneider G]]
-	~~[[Category: Angucycline]]~~	+
-	~~[[Category: Aromatic hydroxylase]]~~	+
-	~~[[Category: Fad]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Polyketide~~]]	+

OCA at 08:13, 25 June 2021

2021-06-25T08:13:32Z

←Older revision		Revision as of 08:13, 25 June 2021
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	==Crystal structure of PgaE, an aromatic hydroxylase involved in angucycline biosynthesis==		==Crystal structure of PgaE, an aromatic hydroxylase involved in angucycline biosynthesis==
-	<StructureSection load='2qa1' size='340' side='right' caption='[[2qa1]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='2qa1' size='340' side='right'caption='[[2qa1]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qa1]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Streptomyces_sp._pga64 Streptomyces sp. pga64]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2QA1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qa1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_sp._pga64 Streptomyces sp. pga64]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QA1 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=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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">[[2qa2\|2qa2]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2qa2\|2qa2]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=161235 Streptomyces sp. PGA64])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=161235 Streptomyces sp. PGA64])</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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [~~http~~://pdbe.org/2qa1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2qa1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2qa1 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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [https://pdbe.org/2qa1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [https://www.ebi.ac.uk/pdbsum/2qa1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qa1 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 32:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Streptomyces sp. pga64]]		[[Category: Streptomyces sp. pga64]]
	[[Category: Dobritzsch, D]]		[[Category: Dobritzsch, D]]

OCA at 08:55, 29 August 2018

2018-08-29T08:55:59Z

←Older revision		Revision as of 08:55, 29 August 2018
Line 1:		Line 1:
		+
	==Crystal structure of PgaE, an aromatic hydroxylase involved in angucycline biosynthesis==		==Crystal structure of PgaE, an aromatic hydroxylase involved in angucycline biosynthesis==
	<StructureSection load='2qa1' size='340' side='right' caption='[[2qa1]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2qa1' size='340' side='right' caption='[[2qa1]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa2\|2qa2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa2\|2qa2]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=161235 Streptomyces sp. PGA64])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=161235 Streptomyces sp. PGA64])</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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [http://pdbe.org/2qa1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2qa1 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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [http://pdbe.org/2qa1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2qa1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2qa1 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qa/2qa1_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qa/2qa1_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 03:42, 10 February 2016

2016-02-10T03:42:50Z

←Older revision		Revision as of 03:42, 10 February 2016
Line 16:		Line 16:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2qa1 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 05:02, 11 September 2015

2015-09-11T05:02:34Z

←Older revision		Revision as of 05:02, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2qa1' size='340' side='right' caption='[[2qa1]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2qa1' size='340' side='right' caption='[[2qa1]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qa1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces ~~Streptomyces~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QA1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qa1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_sp._pga64 Streptomyces sp. pga64]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QA1 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=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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">[[2qa2\|2qa2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa2\|2qa2]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~1883~~ Streptomyces])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=161235 Streptomyces sp. PGA64])</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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2qa1 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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [http://pdbe.org/2qa1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2qa1 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 2qa1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Streptomyces]]	+	[[Category: Streptomyces sp. pga64]]
	[[Category: Dobritzsch, D]]		[[Category: Dobritzsch, D]]
	[[Category: Kallio, P]]		[[Category: Kallio, P]]

OCA at 14:21, 19 January 2015

2015-01-19T14:21:54Z

←Older revision		Revision as of 14:21, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2qa1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces Streptomyces]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QA1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2qa1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces Streptomyces]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QA1 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=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa2\|2qa2]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa2\|2qa2]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1883 Streptomyces])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1883 Streptomyces])</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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2qa1 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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2qa1 PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Streptomyces]]		[[Category: Streptomyces]]
-	[[Category: Dobritzsch, D.]]	+	[[Category: Dobritzsch, D]]
-	[[Category: Kallio, P.]]	+	[[Category: Kallio, P]]
-	[[Category: Koskiniemi, H.]]	+	[[Category: Koskiniemi, H]]
-	[[Category: Metsa-Ketela, M.]]	+	[[Category: Metsa-Ketela, M]]
-	[[Category: Niemi, J.]]	+	[[Category: Niemi, J]]
-	[[Category: Schneider, G.]]	+	[[Category: Schneider, G]]
	[[Category: Angucycline]]		[[Category: Angucycline]]
	[[Category: Aromatic hydroxylase]]		[[Category: Aromatic hydroxylase]]

OCA at 18:27, 30 September 2014

2014-09-30T18:27:51Z

←Older revision		Revision as of 18:27, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2qa1.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of PgaE, an aromatic hydroxylase involved in angucycline biosynthesis==
		+	<StructureSection load='2qa1' size='340' side='right' caption='[[2qa1]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2qa1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces Streptomyces]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QA1 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=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa2\|2qa2]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pgaE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1883 Streptomyces])</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=2qa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qa1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2qa1 PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qa/2qa1_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Angucyclines are aromatic polyketides produced in Streptomycetes via complex enzymatic biosynthetic pathways. PgaE and CabE from S. sp PGA64 and S. sp. H021 are two related homo-dimeric FAD and NADPH dependent aromatic hydroxylases involved in the early steps of the angucycline core modification. Here we report the three-dimensional structures of these two enzymes determined by X-ray crystallography using multiple anomalous diffraction and molecular replacement, respectively, to resolutions of 1.8 A and 2.7 A. The enzyme subunits are built up of three domains, a FAD binding domain, a domain involved in substrate binding and a C-terminal thioredoxin-like domain of unknown function. The structure analysis identifies PgaE and CabE as members of the para-hydroxybenzoate hydroxylase (pHBH) fold family of aromatic hydroxylases. In contrast to phenol hydroxylase and 3-hydroxybenzoate hydroxylase that utilize the C-terminal domain for dimer formation, this domain is not part of the subunit-subunit interface in PgaE and CabE. Instead, dimer assembly occurs through interactions of their FAD binding domains. FAD is bound non-covalently in the "in"-conformation. The active sites in the two enzymes differ significantly from those of other aromatic hydroxylases. The volumes of the active site are significantly larger, as expected in view of the voluminous tetracyclic angucycline substrates. The structures further suggest that substrate binding and catalysis may involve dynamic rearrangements of the middle domain relative to the other two domains. Site-directed mutagenesis studies of putative catalytic groups in the active site of PgaE argue against enzyme-catalyzed substrate deprotonation as a step in catalysis. This is in contrast to pHBH, where deprotonation/protonation of the substrate has been suggested as an essential part of the enzymatic mechanism.

-	~~{{STRUCTURE_2qa1\| PDB=2qa1 \| SCENE= }}~~	+	Crystal structures of two aromatic hydroxylases involved in the early tailoring steps of angucycline biosynthesis.,Koskiniemi H, Metsa-Ketela M, Dobritzsch D, Kallio P, Korhonen H, Mantsala P, Schneider G, Niemi J J Mol Biol. 2007 Sep 21;372(3):633-48. Epub 2007 Jul 10. PMID:17669423<ref>PMID:17669423</ref>

-	~~===Crystal structure of PgaE~~, ~~an aromatic hydroxylase involved in angucycline biosynthesis===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17669423}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2qa1]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Streptomyces Streptomyces]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:017669423<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Streptomyces]]		[[Category: Streptomyces]]
	[[Category: Dobritzsch, D.]]		[[Category: Dobritzsch, D.]]

OCA: Protected "2qa1" [edit=sysop:move=sysop]

2013-01-07T18:21:45Z

Protected "2qa1" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:21, 7 January 2013

OCA at 18:21, 7 January 2013

2013-01-07T18:21:42Z

←Older revision		Revision as of 18:21, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2qa1.png\|left\|200px]]		[[Image:2qa1.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2qa1", 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_2qa1\| PDB=2qa1 \| SCENE= }}		{{STRUCTURE_2qa1\| PDB=2qa1 \| SCENE= }}

	===Crystal structure of PgaE, an aromatic hydroxylase involved in angucycline biosynthesis===		===Crystal structure of PgaE, an aromatic hydroxylase involved in angucycline biosynthesis===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17669423}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17669423 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17669423}}		{{ABSTRACT_PUBMED_17669423}}

	==About this Structure==		==About this Structure==
-	~~2QA1~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/~~Streptomyces_sp._pga64~~ Streptomyces ~~sp. pga64~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA].	+	[[2qa1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces Streptomyces]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17669423~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017669423</ref><references group="xtra"/>
-	[[Category: Streptomyces ~~sp. pga64~~]]	+	[[Category: Streptomyces]]
	[[Category: Dobritzsch, D.]]		[[Category: Dobritzsch, D.]]
	[[Category: Kallio, P.]]		[[Category: Kallio, P.]]
Line 36:		Line 24:
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Polyketide]]		[[Category: Polyketide]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:09:33 2009''

OCA at 13:09, 17 February 2009

2009-02-17T13:09:34Z

←Older revision		Revision as of 13:09, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2QA1 is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Streptomyces_sp._pga64 Streptomyces sp. pga64]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA].	+	2QA1 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Streptomyces_sp._pga64 Streptomyces sp. pga64]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QA1 OCA].

	==Reference==		==Reference==
-	Crystal structures of two aromatic hydroxylases involved in the early tailoring steps of angucycline biosynthesis., Koskiniemi H, Metsa-Ketela M, Dobritzsch D, Kallio P, Korhonen H, Mantsala P, Schneider G, Niemi J, J Mol Biol. 2007 Sep 21;372(3):633-48. Epub 2007 Jul 10. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17669423 17669423]~~	+	<ref group="xtra">PMID:17669423</ref><references group="xtra"/>
-	~~[[Category: Single protein]]~~	+
	[[Category: Streptomyces sp. pga64]]		[[Category: Streptomyces sp. pga64]]
	[[Category: Dobritzsch, D.]]		[[Category: Dobritzsch, D.]]
Line 38:		Line 37:
	[[Category: Polyketide]]		[[Category: Polyketide]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 20~~:45:~~16 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:09:33 2009''