5kil - Revision history

OCA at 10:01, 27 September 2023

2023-09-27T10:01:30Z

←Older revision		Revision as of 10:01, 27 September 2023
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	<StructureSection load='5kil' size='340' side='right'caption='[[5kil]], [[Resolution\|resolution]] 2.72Å' scene=''>		<StructureSection load='5kil' size='340' side='right'caption='[[5kil]], [[Resolution\|resolution]] 2.72Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kil]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Strvp Strvp~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KIL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KIL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kil]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_venezuelae_ATCC_10712 Streptomyces venezuelae ATCC 10712]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KIL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KIL FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=ACT:ACETATE+ION'~~>~~ACT</scene>, <scene name='pdbligand=FEO:MU~~-~~OXO-DIIRON'>FEO</scene>~~, ~~<scene name='pdbligand=K:POTASSIUM+ION'>K</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]] 2.72Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[4jo0\|4jo0]], [[5kik\|5kik]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=FEO:MU-OXO-DIIRON'>FEO</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	<~~tr id~~='~~gene~~'><~~td class="sblockLbl"~~><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">SVEN_0921 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=953739 STRVP])~~</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=5kil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kil OCA], [https://pdbe.org/5kil PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kil RCSB], [https://www.ebi.ac.uk/pdbsum/5kil PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kil ProSAT]</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=5kil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kil OCA], [~~http~~://pdbe.org/5kil PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kil RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kil PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kil ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CMLA_STRVP CMLA_STRVP] Involved in chloramphenicol biosynthesis (PubMed:20713732). Catalyzes the beta-hydroxylation of 4-amino-L-phenylalanine (L-PAPA) covalently bound to CmlP to form L-p-aminophenylserine (PubMed:20713732).<ref>PMID:20713732</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Strvp~~]]	+	[[Category: Streptomyces venezuelae ATCC 10712]]
-	[[Category: Knoot~~, C J~~]]	+	[[Category: Knoot CJ]]
-	[[Category: Lipscomb~~, J D]]~~	+	[[Category: Lipscomb JD]]
-	~~[[Category: Antibiotic biosynthesis]]~~	+
-	~~[[Category: Beta-hydroxylase]]~~	+
-	~~[[Category: Diiron cluster]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Oxygen activation~~]]	+

OCA at 12:17, 25 December 2019

2019-12-25T12:17:05Z

←Older revision		Revision as of 12:17, 25 December 2019
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	==CmlA beta-hydroxylase E377D mutant==		==CmlA beta-hydroxylase E377D mutant==
-	<StructureSection load='5kil' size='340' side='right' caption='[[5kil]], [[Resolution\|resolution]] 2.72Å' scene=''>	+	<StructureSection load='5kil' size='340' side='right'caption='[[5kil]], [[Resolution\|resolution]] 2.72Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5kil]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Strvp Strvp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KIL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KIL FirstGlance]. <br>		<table><tr><td colspan='2'>[[5kil]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Strvp Strvp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KIL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KIL FirstGlance]. <br>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Strvp]]		[[Category: Strvp]]
	[[Category: Knoot, C J]]		[[Category: Knoot, C J]]

OCA at 18:20, 15 November 2017

2017-11-15T18:20:50Z

←Older revision		Revision as of 18:20, 15 November 2017
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	<StructureSection load='5kil' size='340' side='right' caption='[[5kil]], [[Resolution\|resolution]] 2.72Å' scene=''>		<StructureSection load='5kil' size='340' side='right' caption='[[5kil]], [[Resolution\|resolution]] 2.72Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kil]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KIL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KIL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kil]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Strvp Strvp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KIL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KIL FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=FEO:MU-OXO-DIIRON'>FEO</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=FEO:MU-OXO-DIIRON'>FEO</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4jo0\|4jo0]], [[5kik\|5kik]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4jo0\|4jo0]], [[5kik\|5kik]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SVEN_0921 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=953739 STRVP])</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=5kil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kil OCA], [http://pdbe.org/5kil PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kil RCSB], [http://www.ebi.ac.uk/pdbsum/5kil PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kil ProSAT]</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=5kil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kil OCA], [http://pdbe.org/5kil PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kil RCSB], [http://www.ebi.ac.uk/pdbsum/5kil PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kil ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Strvp]]
	[[Category: Knoot, C J]]		[[Category: Knoot, C J]]
	[[Category: Lipscomb, J D]]		[[Category: Lipscomb, J D]]

OCA at 13:48, 27 April 2017

2017-04-27T13:48:55Z

←Older revision		Revision as of 13:48, 27 April 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5kil is ~~ON HOLD until Paper~~ Publication	+	==CmlA beta-hydroxylase E377D mutant==
		+	<StructureSection load='5kil' size='340' side='right' caption='[[5kil]], [[Resolution\|resolution]] 2.72Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5kil]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KIL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KIL FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=FEO:MU-OXO-DIIRON'>FEO</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4jo0\|4jo0]], [[5kik\|5kik]]</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=5kil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kil OCA], [http://pdbe.org/5kil PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kil RCSB], [http://www.ebi.ac.uk/pdbsum/5kil PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kil ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The first step in the nonribosomal peptide synthetase (NRPS)-based biosynthesis of chloramphenicol is the beta-hydroxylation of the precursor l-p-aminophenylalanine (l-PAPA) catalyzed by the monooxygenase CmlA. The active site of CmlA contains a dinuclear iron cluster that is reduced to the diferrous state (WTR) to initiate O2 activation. However, rapid O2 activation occurs only when WTR is bound to CmlP, the NRPS to which l-PAPA is covalently attached. Here the X-ray crystal structure of WTR is reported, which is very similar to that of the as-isolated diferric enzyme in which the irons are coordinately saturated. X-ray absorption spectroscopy is used to investigate the WTR cluster ligand structure as well as the structures of WTR in complex with a functional CmlP variant (CmlPAT) with and without l-PAPA attached. It is found that formation of the active WTR:CmlPAT-l-PAPA complex converts at least one iron of the cluster from six- to five-coordinate by changing a bidentately bound amino acid carboxylate to monodentate on Fe1. The only bidentate carboxylate in the structure of WTR is E377. The crystal structure of the CmlA variant E377D shows only monodentate carboxylate coordination. Reduced E377D reacts rapidly with O2 in the presence or absence of CmlPAT-l-PAPA, showing loss of regulation. However, this variant fails to catalyze hydroxylation, suggesting that E377 has the dual role of coupling regulation of O2 reactivity with juxtaposition of the substrate and the reactive oxygen species. The carboxylate shift in response to substrate binding represents a novel regulatory strategy for oxygen activation in diiron oxygenases.

-	~~Authors~~:	+	A Carboxylate Shift Regulates Dioxygen Activation by the Diiron Nonheme beta-Hydroxylase CmlA upon Binding of a Substrate-Loaded Nonribosomal Peptide Synthetase.,Jasniewski AJ, Knoot CJ, Lipscomb JD, Que L Jr Biochemistry. 2016 Oct 18;55(41):5818-5831. doi: 10.1021/acs.biochem.6b00834., Epub 2016 Oct 7. PMID:27668828<ref>PMID:27668828</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5kil" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Knoot, C J]]
		+	[[Category: Lipscomb, J D]]
		+	[[Category: Antibiotic biosynthesis]]
		+	[[Category: Beta-hydroxylase]]
		+	[[Category: Diiron cluster]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Oxygen activation]]

OCA at 12:26, 26 July 2016

2016-07-26T12:26:49Z

←Older revision		Revision as of 12:26, 26 July 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5kil is ON HOLD	+	The entry 5kil is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5kil" [edit=sysop:move=sysop]

2016-06-23T21:40:43Z

Protected "5kil" [edit=sysop:move=sysop]

←Older revision

Revision as of 21:40, 23 June 2016

OCA: New page: '''Unreleased structure''' The entry 5kil is ON HOLD Authors: Description: Category: Unreleased Structures

2016-06-23T21:40:42Z

New page: '''Unreleased structure''' The entry 5kil is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5kil is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]