1w04 - Revision history

OCA at 13:10, 13 December 2023

OCA — Wed, 13 Dec 2023 13:10:26 GMT

←Older revision		Revision as of 13:10, 13 December 2023
Line 3:		Line 3:
	<StructureSection load='1w04' size='340' side='right'caption='[[1w04]], [[Resolution\|resolution]] 1.28Å' scene=''>		<StructureSection load='1w04' size='340' side='right'caption='[[1w04]], [[Resolution\|resolution]] 1.28Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1w04]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~A._nidulans A.~~ nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1W04 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1w04]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_nidulans Aspergillus nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1W04 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HCG:DELTA-(L-ALPHA-AMINOADIPOYL)-L-CYSTEINYL-GLYCINE'>HCG</scene>, <scene name='pdbligand=HOA:HYDROXYAMINE'>HOA</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]] 1.28Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1bk0\|1bk0]], [[1blz\|1blz]], [[1hb1\|1hb1]], [[1hb2\|1hb2]], [[1hb3\|1hb3]], [[1hb4\|1hb4]], [[1ips\|1ips]], [[1obn\|1obn]], [[1oc1\|1oc1]], [[1odm\|1odm]], [[1odn\|1odn]], [[1qiq\|1qiq]], [[1qje\|1qje]], [[1qjf\|1qjf]], [[1uzw\|1uzw]], [[1w03\|1w03]], [[1w05\|1w05]], [[1w06\|1w06]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HCG:DELTA-(L-ALPHA-AMINOADIPOYL)-L-CYSTEINYL-GLYCINE'>HCG</scene>, <scene name='pdbligand=HOA:HYDROXYAMINE'>HOA</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">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 A. nidulans])</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=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [https://pdbe.org/1w04 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [https://www.ebi.ac.uk/pdbsum/1w04 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1w04 ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </span></td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [~~http~~://pdbe.org/1w04 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1w04 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1w04 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~IPNS_EMENI IPNS_EMENI~~]~~] Removes, in~~ the ~~presence~~ of ~~oxygen~~, ~~4 hydrogen atoms from delta~~-L-(~~alpha~~-~~aminoadipyl~~)-L-cysteinyl-D-valine (ACV) to ~~form~~ the ~~azetidinone and thiazolidine rings of~~ isopenicillin.	+	[https://www.uniprot.org/uniprot/IPNA_EMENI IPNA_EMENI] Isopenicillin N synthase; part of the gene cluster that mediates the biosynthesis of penicillin, the world's most important antibiotic (PubMed:3319778, PubMed:11755401). IpnA catalyzes the cyclization of the tripeptide N-[(5S)-5-amino-5-carboxypentanoyl]-L-cysteinyl-D-valine (LLD-ACV or ACV) to form isopenicillin N (IPN) that contains the beta-lactam nucleus (PubMed:3319778, PubMed:11755401, PubMed:28703303). The penicillin biosynthesis occurs via 3 enzymatic steps, the first corresponding to the production of the tripeptide N-[(5S)-5-amino-5-carboxypentanoyl]-L-cysteinyl-D-valine (LLD-ACV or ACV) by the NRPS acvA. The tripeptide ACV is then cyclized to isopenicillin N (IPN) by the isopenicillin N synthase ipnA that forms the beta-lactam nucleus. Finally, the alpha-aminoadipyl side chain is exchanged for phenylacetic acid by the isopenicillin N acyltransferase penDE to yield penicillin in the peroxisomal matrix (By similarity).[UniProtKB:P08703]<ref>PMID:11755401</ref> <ref>PMID:28703303</ref> <ref>PMID:3319778</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 38:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: A. nidulans]]	+	[[Category: Aspergillus nidulans]]
-	~~[[Category: Isopenicillin-N synthase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Clifton~~, I J~~]]	+	[[Category: Clifton IJ]]
-	[[Category: Long~~, A J~~]]	+	[[Category: Long AJ]]
-	[[Category: Rutledge~~, P J]]~~	+	[[Category: Rutledge PJ]]
-	~~[[Category: B-lactam antibiotic]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Oxygenase]]~~	+
-	~~[[Category: Penicillin biosynthesis~~]]	+

OCA at 07:42, 30 December 2020

OCA — Wed, 30 Dec 2020 07:42:13 GMT

←Older revision		Revision as of 07:42, 30 December 2020
Line 1:		Line 1:

	==Isopenicillin N Synthase Aminoadipoyl-Cysteinyl-Glycine-Fe-NO Complex==		==Isopenicillin N Synthase Aminoadipoyl-Cysteinyl-Glycine-Fe-NO Complex==
-	<StructureSection load='1w04' size='340' side='right' caption='[[1w04]], [[Resolution\|resolution]] 1.28Å' scene=''>	+	<StructureSection load='1w04' size='340' side='right'caption='[[1w04]], [[Resolution\|resolution]] 1.28Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1w04]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/A._nidulans A. nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1W04 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1w04]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/A._nidulans A. nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1W04 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HCG:DELTA-(L-ALPHA-AMINOADIPOYL)-L-CYSTEINYL-GLYCINE'>HCG</scene>, <scene name='pdbligand=HOA:HYDROXYAMINE'>HOA</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=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HCG:DELTA-(L-ALPHA-AMINOADIPOYL)-L-CYSTEINYL-GLYCINE'>HCG</scene>, <scene name='pdbligand=HOA:HYDROXYAMINE'>HOA</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">[[1bk0\|1bk0]], [[1blz\|1blz]], [[1hb1\|1hb1]], [[1hb2\|1hb2]], [[1hb3\|1hb3]], [[1hb4\|1hb4]], [[1ips\|1ips]], [[1obn\|1obn]], [[1oc1\|1oc1]], [[1odm\|1odm]], [[1odn\|1odn]], [[1qiq\|1qiq]], [[1qje\|1qje]], [[1qjf\|1qjf]], [[1uzw\|1uzw]], [[1w03\|1w03]], [[1w05\|1w05]], [[1w06\|1w06]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1bk0\|1bk0]], [[1blz\|1blz]], [[1hb1\|1hb1]], [[1hb2\|1hb2]], [[1hb3\|1hb3]], [[1hb4\|1hb4]], [[1ips\|1ips]], [[1obn\|1obn]], [[1oc1\|1oc1]], [[1odm\|1odm]], [[1odn\|1odn]], [[1qiq\|1qiq]], [[1qje\|1qje]], [[1qjf\|1qjf]], [[1uzw\|1uzw]], [[1w03\|1w03]], [[1w05\|1w05]], [[1w06\|1w06]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 A. nidulans])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 A. nidulans])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </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=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [http://pdbe.org/1w04 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [http://www.ebi.ac.uk/pdbsum/1w04 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1w04 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [http://pdbe.org/1w04 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [http://www.ebi.ac.uk/pdbsum/1w04 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1w04 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 40:		Line 40:
	[[Category: A. nidulans]]		[[Category: A. nidulans]]
	[[Category: Isopenicillin-N synthase]]		[[Category: Isopenicillin-N synthase]]
		+	[[Category: Large Structures]]
	[[Category: Clifton, I J]]		[[Category: Clifton, I J]]
	[[Category: Long, A J]]		[[Category: Long, A J]]

OCA at 07:44, 4 April 2018

OCA — Wed, 04 Apr 2018 07:44:59 GMT

←Older revision		Revision as of 07:44, 4 April 2018
Line 1:		Line 1:
-	==~~ISOPENICILLIN~~ N ~~SYNTHASE AMINOADIPOYL~~-~~CYSTEINYL~~-~~GLYCINE~~-FE-NO ~~COMPLEX~~==	+
		+	==Isopenicillin N Synthase Aminoadipoyl-Cysteinyl-Glycine-Fe-NO Complex==
	<StructureSection load='1w04' size='340' side='right' caption='[[1w04]], [[Resolution\|resolution]] 1.28Å' scene=''>		<StructureSection load='1w04' size='340' side='right' caption='[[1w04]], [[Resolution\|resolution]] 1.28Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 A. nidulans])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 A. nidulans])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </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=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [http://pdbe.org/1w04 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [http://www.ebi.ac.uk/pdbsum/1w04 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=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [http://pdbe.org/1w04 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [http://www.ebi.ac.uk/pdbsum/1w04 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1w04 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w0/1w04_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w0/1w04_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 21:08, 9 February 2016

OCA — Tue, 09 Feb 2016 21:08:45 GMT

←Older revision		Revision as of 21:08, 9 February 2016
Line 19:		Line 19:
	<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=1w04 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 02:03, 11 September 2015

OCA — Fri, 11 Sep 2015 02:03:16 GMT

←Older revision		Revision as of 02:03, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1w04' size='340' side='right' caption='[[1w04]], [[Resolution\|resolution]] 1.28Å' scene=''>		<StructureSection load='1w04' size='340' side='right' caption='[[1w04]], [[Resolution\|resolution]] 1.28Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1w04]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Emericella_nidulans Emericella~~ nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W04 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1w04]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/A._nidulans A. nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W04 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HCG:DELTA-(L-ALPHA-AMINOADIPOYL)-L-CYSTEINYL-GLYCINE'>HCG</scene>, <scene name='pdbligand=HOA:HYDROXYAMINE'>HOA</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=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HCG:DELTA-(L-ALPHA-AMINOADIPOYL)-L-CYSTEINYL-GLYCINE'>HCG</scene>, <scene name='pdbligand=HOA:HYDROXYAMINE'>HOA</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">[[1bk0\|1bk0]], [[1blz\|1blz]], [[1hb1\|1hb1]], [[1hb2\|1hb2]], [[1hb3\|1hb3]], [[1hb4\|1hb4]], [[1ips\|1ips]], [[1obn\|1obn]], [[1oc1\|1oc1]], [[1odm\|1odm]], [[1odn\|1odn]], [[1qiq\|1qiq]], [[1qje\|1qje]], [[1qjf\|1qjf]], [[1uzw\|1uzw]], [[1w03\|1w03]], [[1w05\|1w05]], [[1w06\|1w06]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bk0\|1bk0]], [[1blz\|1blz]], [[1hb1\|1hb1]], [[1hb2\|1hb2]], [[1hb3\|1hb3]], [[1hb4\|1hb4]], [[1ips\|1ips]], [[1obn\|1obn]], [[1oc1\|1oc1]], [[1odm\|1odm]], [[1odn\|1odn]], [[1qiq\|1qiq]], [[1qje\|1qje]], [[1qjf\|1qjf]], [[1uzw\|1uzw]], [[1w03\|1w03]], [[1w05\|1w05]], [[1w06\|1w06]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 ~~Emericella~~ nidulans])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 A. nidulans])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </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=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [http://www.ebi.ac.uk/pdbsum/1w04 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=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [http://pdbe.org/1w04 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [http://www.ebi.ac.uk/pdbsum/1w04 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 29:		Line 29:
	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 1w04" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Emericella~~ nidulans]]	+	[[Category: A. nidulans]]
	[[Category: Isopenicillin-N synthase]]		[[Category: Isopenicillin-N synthase]]
	[[Category: Clifton, I J]]		[[Category: Clifton, I J]]

OCA at 09:33, 25 December 2014

OCA — Thu, 25 Dec 2014 09:33:05 GMT

←Older revision		Revision as of 09:33, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1w04]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Emericella_nidulans Emericella nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W04 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1w04]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Emericella_nidulans Emericella nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W04 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HCG:DELTA-(L-ALPHA-AMINOADIPOYL)-L-CYSTEINYL-GLYCINE'>HCG</scene>, <scene name='pdbligand=HOA:HYDROXYAMINE'>HOA</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=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HCG:DELTA-(L-ALPHA-AMINOADIPOYL)-L-CYSTEINYL-GLYCINE'>HCG</scene>, <scene name='pdbligand=HOA:HYDROXYAMINE'>HOA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bk0\|1bk0]], [[1blz\|1blz]], [[1hb1\|1hb1]], [[1hb2\|1hb2]], [[1hb3\|1hb3]], [[1hb4\|1hb4]], [[1ips\|1ips]], [[1obn\|1obn]], [[1oc1\|1oc1]], [[1odm\|1odm]], [[1odn\|1odn]], [[1qiq\|1qiq]], [[1qje\|1qje]], [[1qjf\|1qjf]], [[1uzw\|1uzw]], [[1w03\|1w03]], [[1w05\|1w05]], [[1w06\|1w06]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bk0\|1bk0]], [[1blz\|1blz]], [[1hb1\|1hb1]], [[1hb2\|1hb2]], [[1hb3\|1hb3]], [[1hb4\|1hb4]], [[1ips\|1ips]], [[1obn\|1obn]], [[1oc1\|1oc1]], [[1odm\|1odm]], [[1odn\|1odn]], [[1qiq\|1qiq]], [[1qje\|1qje]], [[1qjf\|1qjf]], [[1uzw\|1uzw]], [[1w03\|1w03]], [[1w05\|1w05]], [[1w06\|1w06]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 Emericella nidulans])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 Emericella nidulans])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </span></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=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [http://www.ebi.ac.uk/pdbsum/1w04 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=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [http://www.ebi.ac.uk/pdbsum/1w04 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/IPNS_EMENI IPNS_EMENI]] Removes, in the presence of oxygen, 4 hydrogen atoms from delta-L-(alpha-aminoadipyl)-L-cysteinyl-D-valine (ACV) to form the azetidinone and thiazolidine rings of isopenicillin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: Emericella nidulans]]		[[Category: Emericella nidulans]]
	[[Category: Isopenicillin-N synthase]]		[[Category: Isopenicillin-N synthase]]
-	[[Category: Clifton, I J.]]	+	[[Category: Clifton, I J]]
-	[[Category: Long, A J.]]	+	[[Category: Long, A J]]
-	[[Category: Rutledge, P J.]]	+	[[Category: Rutledge, P J]]
	[[Category: B-lactam antibiotic]]		[[Category: B-lactam antibiotic]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Oxygenase]]		[[Category: Oxygenase]]
	[[Category: Penicillin biosynthesis]]		[[Category: Penicillin biosynthesis]]

OCA at 20:39, 29 September 2014

OCA — Mon, 29 Sep 2014 20:39:52 GMT

←Older revision		Revision as of 20:39, 29 September 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_1w04\| PDB=1w04 \| SCENE= }}~~	+	==ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL-GLYCINE-FE-NO COMPLEX==
-	===ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL-GLYCINE-FE-NO COMPLEX===	+	<StructureSection load='1w04' size='340' side='right' caption='[[1w04]], [[Resolution\|resolution]] 1.28Å' scene=''>
-	~~{{ABSTRACT_PUBMED_15850395}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1w04]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Emericella_nidulans Emericella nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W04 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HCG:DELTA-(L-ALPHA-AMINOADIPOYL)-L-CYSTEINYL-GLYCINE'>HCG</scene>, <scene name='pdbligand=HOA:HYDROXYAMINE'>HOA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bk0\|1bk0]], [[1blz\|1blz]], [[1hb1\|1hb1]], [[1hb2\|1hb2]], [[1hb3\|1hb3]], [[1hb4\|1hb4]], [[1ips\|1ips]], [[1obn\|1obn]], [[1oc1\|1oc1]], [[1odm\|1odm]], [[1odn\|1odn]], [[1qiq\|1qiq]], [[1qje\|1qje]], [[1qjf\|1qjf]], [[1uzw\|1uzw]], [[1w03\|1w03]], [[1w05\|1w05]], [[1w06\|1w06]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCB C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=162425 Emericella nidulans])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopenicillin-N_synthase Isopenicillin-N synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.1 1.21.3.1] </span></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=1w04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w04 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1w04 RCSB], [http://www.ebi.ac.uk/pdbsum/1w04 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/w0/1w04_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 ==
		+	Isopenicillin N synthase (IPNS), a non-heme iron(II)-dependent oxidase, catalyzes conversion of the tripeptide delta-(l-alpha-aminoadipoyl)-l-cysteinyl-d-valine (ACV) to bicyclic isopenicillin N (IPN), concomitant with the reduction of dioxygen to two molecules of water. Incubation of the "truncated"substrate analogues delta-(l-alpha-aminoadipoyl)-l-cysteinyl-glycine (ACG) and delta-(l-alpha-aminoadipoyl)-l-cysteinyl-d-alanine (ACA) with IPNS has previously been shown to afford acyclic products, in which the substrate cysteinyl residue has undergone a two-electron oxidation. We report X-ray crystal structures for the anaerobic IPNS/Fe(II)/ACG and IPNS/Fe(II)/ACA complexes, both in the absence and presence of the dioxygen analogue nitric oxide. The overall protein structures are very similar to those of the corresponding IPNS/Fe(II)/ACV complexes; however, significant differences are apparent in the vicinity of the active site iron. The structure of the IPNS/Fe(II)/ACG complex reveals that the C-terminal carboxylate of this substrate is oriented toward the active site iron atom, apparently hydrogen-bonded to an additional water ligand at the metal; this is a different binding mode to that observed in the IPNS/Fe(II)/ACV complex. ACA binds to the metal in a manner that is intermediate between those observed for ACV and ACG. The addition of NO to these complexes initiates conformational changes such that both the IPNS/Fe(II)/ACG/NO and IPNS/Fe(II)/ACA/NO structures closely resemble the IPNS/Fe(II)/ACV/NO complex. These results further demonstrate the feasibility of metal-centered rearrangements in catalysis by non-heme iron enzymes and provide insight into the delicate balance between hydrophilic-hydrophobic interactions and steric effects in the IPNS active site.

-	~~==About this Structure==~~	+	Structural studies on the reaction of isopenicillin N synthase with the truncated substrate analogues delta-(L-alpha-aminoadipoyl)-L-cysteinyl-glycine and delta-(L-alpha-aminoadipoyl)-L-cysteinyl-D-alanine.,Long AJ, Clifton IJ, Roach PL, Baldwin JE, Rutledge PJ, Schofield CJ Biochemistry. 2005 May 3;44(17):6619-28. PMID:15850395<ref>PMID:15850395</ref>
-	~~[[1w04]] is a 1 chain structure~~ with ~~sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Emericella_nidulans Emericella nidulans]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=1W04 OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Isopenicillin N synthase\|Isopenicillin N synthase]]		*[[Isopenicillin N synthase\|Isopenicillin N synthase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:015850395<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Emericella nidulans]]		[[Category: Emericella nidulans]]
	[[Category: Isopenicillin-N synthase]]		[[Category: Isopenicillin-N synthase]]

OCA at 09:32, 11 March 2013

OCA — Mon, 11 Mar 2013 09:32:10 GMT

←Older revision		Revision as of 09:32, 11 March 2013
Line 1:		Line 1:
-	[[Image:1w04.png\|left\|200px]]
-
	{{STRUCTURE_1w04\| PDB=1w04 \| SCENE= }}		{{STRUCTURE_1w04\| PDB=1w04 \| SCENE= }}
-
	===ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL-GLYCINE-FE-NO COMPLEX===		===ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL-GLYCINE-FE-NO COMPLEX===
-
	{{ABSTRACT_PUBMED_15850395}}		{{ABSTRACT_PUBMED_15850395}}

OCA: Protected "1w04" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 11:28:18 GMT

Protected "1w04" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:28, 5 January 2013

OCA at 11:28, 5 January 2013

OCA — Sat, 05 Jan 2013 11:28:15 GMT

←Older revision		Revision as of 11:28, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1w04.png\|left\|200px]]		[[Image:1w04.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1w04", 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_1w04\| PDB=1w04 \| SCENE= }}		{{STRUCTURE_1w04\| PDB=1w04 \| SCENE= }}

	===ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL-GLYCINE-FE-NO COMPLEX===		===ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL-GLYCINE-FE-NO COMPLEX===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15850395}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15850395 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15850395}}		{{ABSTRACT_PUBMED_15850395}}

	==About this Structure==		==About this Structure==
-	~~1W04~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Emericella_nidulans Emericella nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA].	+	[[1w04]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Emericella_nidulans Emericella nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W04 OCA].
		+
		+	==See Also==
		+	*[[Isopenicillin N synthase\|Isopenicillin N synthase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15850395~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015850395</ref><references group="xtra"/>
	[[Category: Emericella nidulans]]		[[Category: Emericella nidulans]]
	[[Category: Isopenicillin-N synthase]]		[[Category: Isopenicillin-N synthase]]
Line 33:		Line 24:
	[[Category: Oxygenase]]		[[Category: Oxygenase]]
	[[Category: Penicillin biosynthesis]]		[[Category: Penicillin biosynthesis]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 12:45:44 2009''