4tm1 - Revision history

OCA at 07:19, 27 September 2023

2023-09-27T07:19:40Z

←Older revision		Revision as of 07:19, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4tm1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Kutzneria_sp._744 Kutzneria sp. 744]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4TM1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4tm1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Kutzneria_sp._744 Kutzneria sp. 744]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4TM1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=FDA:DIHYDROFLAVINE-ADENINE+DINUCLEOTIDE'>FDA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</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]] 2.39Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=FDA:DIHYDROFLAVINE-ADENINE+DINUCLEOTIDE'>FDA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></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=4tm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tm1 OCA], [https://pdbe.org/4tm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4tm1 RCSB], [https://www.ebi.ac.uk/pdbsum/4tm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4tm1 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=4tm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tm1 OCA], [https://pdbe.org/4tm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4tm1 RCSB], [https://www.ebi.ac.uk/pdbsum/4tm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4tm1 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 10:45, 15 March 2023

2023-03-15T10:45:46Z

←Older revision		Revision as of 10:45, 15 March 2023
Line 3:		Line 3:
	<StructureSection load='4tm1' size='340' side='right'caption='[[4tm1]], [[Resolution\|resolution]] 2.39Å' scene=''>		<StructureSection load='4tm1' size='340' side='right'caption='[[4tm1]], [[Resolution\|resolution]] 2.39Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4tm1]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Kutzneria_sp._744 Kutzneria sp. 744]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TM1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4TM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4tm1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Kutzneria_sp._744 Kutzneria sp. 744]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4TM1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=FDA:DIHYDROFLAVINE-ADENINE+DINUCLEOTIDE'>FDA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=FDA:DIHYDROFLAVINE-ADENINE+DINUCLEOTIDE'>FDA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tlx\|4tlx]], [[4tlz\|4tlz]], [[4tm0\|4tm0]], [[4tm3\|4tm3]], [[4tm4\|4tm4]]</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=4tm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tm1 OCA], [https://pdbe.org/4tm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4tm1 RCSB], [https://www.ebi.ac.uk/pdbsum/4tm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4tm1 ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ktzI, KUTG_08917 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=345341 Kutzneria sp. 744])</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=4tm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tm1 OCA], [~~http~~://pdbe.org/4tm1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4tm1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4tm1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4tm1 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A8CF85_9PSEU A8CF85_9PSEU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 24:
	[[Category: Kutzneria sp. 744]]		[[Category: Kutzneria sp. 744]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Drennan~~, C L~~]]	+	[[Category: Drennan CL]]
-	[[Category: Setser~~, J W]]~~	+	[[Category: Setser JW]]
-	~~[[Category: Flavin]]~~	+
-	~~[[Category: Hydroxylase]]~~	+
-	~~[[Category: Monooxygenase]]~~	+
-	~~[[Category: Ornithine]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 13:54, 10 May 2019

2019-05-10T13:54:49Z

←Older revision		Revision as of 13:54, 10 May 2019
Line 1:		Line 1:

	==Kutzneria sp. 744 ornithine N-hydroxylase, KtzI-FADred-NADP+-Br==		==Kutzneria sp. 744 ornithine N-hydroxylase, KtzI-FADred-NADP+-Br==
-	<StructureSection load='4tm1' size='340' side='right' caption='[[4tm1]], [[Resolution\|resolution]] 2.39Å' scene=''>	+	<StructureSection load='4tm1' size='340' side='right'caption='[[4tm1]], [[Resolution\|resolution]] 2.39Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4tm1]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4TM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4tm1]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Kutzneria_sp._744 Kutzneria sp. 744]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4TM1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=FDA:DIHYDROFLAVINE-ADENINE+DINUCLEOTIDE'>FDA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=FDA:DIHYDROFLAVINE-ADENINE+DINUCLEOTIDE'>FDA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tlx\|4tlx]], [[4tlz\|4tlz]], [[4tm0\|4tm0]], [[4tm3\|4tm3]], [[4tm4\|4tm4]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tlx\|4tlx]], [[4tlz\|4tlz]], [[4tm0\|4tm0]], [[4tm3\|4tm3]], [[4tm4\|4tm4]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ktzI, KUTG_08917 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=345341 Kutzneria sp. 744])</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=4tm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tm1 OCA], [http://pdbe.org/4tm1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4tm1 RCSB], [http://www.ebi.ac.uk/pdbsum/4tm1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4tm1 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=4tm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tm1 OCA], [http://pdbe.org/4tm1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4tm1 RCSB], [http://www.ebi.ac.uk/pdbsum/4tm1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4tm1 ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Kutzneria sp. 744]]
		+	[[Category: Large Structures]]
	[[Category: Drennan, C L]]		[[Category: Drennan, C L]]
	[[Category: Setser, J W]]		[[Category: Setser, J W]]
Line 27:		Line 30:
	[[Category: Monooxygenase]]		[[Category: Monooxygenase]]
	[[Category: Ornithine]]		[[Category: Ornithine]]
		+	[[Category: Oxidoreductase]]

OCA at 01:07, 19 January 2017

2017-01-19T01:07:01Z

←Older revision		Revision as of 01:07, 19 January 2017
Line 1:		Line 1:
		+
	==Kutzneria sp. 744 ornithine N-hydroxylase, KtzI-FADred-NADP+-Br==		==Kutzneria sp. 744 ornithine N-hydroxylase, KtzI-FADred-NADP+-Br==
	<StructureSection load='4tm1' size='340' side='right' caption='[[4tm1]], [[Resolution\|resolution]] 2.39Å' scene=''>		<StructureSection load='4tm1' size='340' side='right' caption='[[4tm1]], [[Resolution\|resolution]] 2.39Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=FDA:DIHYDROFLAVINE-ADENINE+DINUCLEOTIDE'>FDA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=FDA:DIHYDROFLAVINE-ADENINE+DINUCLEOTIDE'>FDA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tlx\|4tlx]], [[4tlz\|4tlz]], [[4tm0\|4tm0]], [[4tm3\|4tm3]], [[4tm4\|4tm4]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tlx\|4tlx]], [[4tlz\|4tlz]], [[4tm0\|4tm0]], [[4tm3\|4tm3]], [[4tm4\|4tm4]]</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=4tm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4tm1 RCSB], [http://www.ebi.ac.uk/pdbsum/4tm1 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=4tm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tm1 OCA], [http://pdbe.org/4tm1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4tm1 RCSB], [http://www.ebi.ac.uk/pdbsum/4tm1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4tm1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 4tm1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:27, 10 December 2014

2014-12-10T11:27:19Z

←Older revision		Revision as of 11:27, 10 December 2014
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Kutzneria sp. 744 ornithine N-hydroxylase, KtzI-FADred-NADP+-Br==
		+	<StructureSection load='4tm1' size='340' side='right' caption='[[4tm1]], [[Resolution\|resolution]] 2.39Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4tm1]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4TM1 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=FDA:DIHYDROFLAVINE-ADENINE+DINUCLEOTIDE'>FDA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tlx\|4tlx]], [[4tlz\|4tlz]], [[4tm0\|4tm0]], [[4tm3\|4tm3]], [[4tm4\|4tm4]]</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=4tm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4tm1 RCSB], [http://www.ebi.ac.uk/pdbsum/4tm1 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The soil actinomycete Kutzneria sp. 744 produces a class of highly decorated hexadepsipeptides, which represent a new chemical scaffold that has both antimicrobial and antifungal properties. These natural products, known as kutznerides, are created via nonribosomal peptide synthesis using various derivatized amino acids. The piperazic acid moiety contained in the kutzneride scaffold, which is vital for its antibiotic activity, has been shown to derive from the hydroxylated product of l-ornithine, l-N5-hydroxyornithine. The production of this hydroxylated species is catalyzed by the action of an FAD- and NAD(P)H-dependent N-hydroxylase known as KtzI. We have been able to structurally characterize KtzI in several states along its catalytic trajectory, and by pairing these snapshots with the biochemical and structural data already available for this enzyme class, we propose a structurally based reaction mechanism that includes novel conformational changes of both the protein backbone and the flavin cofactor. Further, we were able to recapitulate these conformational changes in the protein crystal, displaying their chemical competence. Our series of structures, with corroborating biochemical and spectroscopic data collected by us and others, affords mechanistic insight into this relatively new class of flavin-dependent hydroxylases and adds another layer to the complexity of flavoenzymes.

-	~~The entry 4tm1 is ON HOLD until Paper Publication~~	+	Crystallographic Evidence of Drastic Conformational Changes in the Active Site of a Flavin-Dependent N-Hydroxylase.,Setser JW, Heemstra JR Jr, Walsh CT, Drennan CL Biochemistry. 2014 Sep 16. PMID:25184411<ref>PMID:25184411</ref>

-	~~Authors: Setser~~, J.W., Drennan, C.L.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~:	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Drennan, C L]]
		+	[[Category: Setser, J W]]
		+	[[Category: Flavin]]
		+	[[Category: Hydroxylase]]
		+	[[Category: Monooxygenase]]
		+	[[Category: Ornithine]]

OCA at 06:42, 18 June 2014

2014-06-18T06:42:19Z

←Older revision		Revision as of 06:42, 18 June 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4tm1 is ON HOLD	+	The entry 4tm1 is ON HOLD until Paper Publication

	Authors: Setser, J.W., Drennan, C.L.		Authors: Setser, J.W., Drennan, C.L.

	Description:		Description:

OCA: Protected "4tm1" [edit=sysop:move=sysop]

2014-06-11T08:12:36Z

Protected "4tm1" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:12, 11 June 2014

OCA: New page: '''Unreleased structure''' The entry 4tm1 is ON HOLD Authors: Setser, J.W., Drennan, C.L. Description:

2014-06-11T08:12:35Z

New page: '''Unreleased structure''' The entry 4tm1 is ON HOLD Authors: Setser, J.W., Drennan, C.L. Description:

New page

'''Unreleased structure'''

The entry 4tm1 is ON HOLD

Authors: Setser, J.W., Drennan, C.L.

Description: