2nli - Revision history

OCA at 08:54, 25 October 2023

OCA — Wed, 25 Oct 2023 08:54:00 GMT

←Older revision		Revision as of 08:54, 25 October 2023
Line 3:		Line 3:
	<StructureSection load='2nli' size='340' side='right'caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>		<StructureSection load='2nli' size='340' side='right'caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"gaffkya_homari"_hitchner_and_snieszko_1947 "gaffkya homari" hitchner and snieszko 1947~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NLI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Aerococcus_viridans Aerococcus viridans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NLI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</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]] 1.59Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [https://pdbe.org/2nli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [https://www.ebi.ac.uk/pdbsum/2nli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nli 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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [https://pdbe.org/2nli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [https://www.ebi.ac.uk/pdbsum/2nli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nli ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/LOX_AERVM LOX_AERVM] Catalyzes the oxidation of (S)-lactate (L-lactate) to pyruvate, with a reduction of O2 to H2O2 (Ref.1, PubMed:27302031, PubMed:25423902, PubMed:2818595, PubMed:8589073, PubMed:26260739). Cannot oxidize D-lactate, glycolate, and D,L-2-hydroxybutanoate (PubMed:2818595). May be involved in the utilization of L-lactate as an energy source for growth (By similarity).[UniProtKB:O33655]<ref>PMID:25423902</ref> <ref>PMID:26260739</ref> <ref>PMID:27302031</ref> <ref>PMID:2818595</ref> <ref>PMID:8589073</ref> [UniProtKB:O33655]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Gaffkya homari hitchner and snieszko 1947]]~~	+	[[Category: Aerococcus viridans]]
-	~~[[Category: Lactate 2-monooxygenase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Balasundaresan, D]]	+	[[Category: Balasundaresan D]]
-	[[Category: Furuichi, M]]	+	[[Category: Furuichi M]]
-	[[Category: Kaneko, H]]	+	[[Category: Kaneko H]]
-	[[Category: Kumar~~, P K.R~~]]	+	[[Category: Kumar PKR]]
-	[[Category: Minagawa, H]]	+	[[Category: Minagawa H]]
-	[[Category: Mizuno, H]]	+	[[Category: Mizuno H]]
-	[[Category: Suzuki, N]]	+	[[Category: Suzuki N]]
-	[[Category: Waga, I]]	+	[[Category: Waga I]]
-	[[Category: Watanabe, Y]]	+	[[Category: Watanabe Y]]
-	[[Category: Yoshida, Y]]	+	[[Category: Yoshida Y]]
-	~~[[Category: D-lactate]]~~	+
-	~~[[Category: Flavoenzyme]]~~	+
-	~~[[Category: Fmn]]~~	+
-	~~[[Category: L-lactate oxidase]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 09:06, 23 February 2022

OCA — Wed, 23 Feb 2022 09:06:33 GMT

←Older revision		Revision as of 09:06, 23 February 2022
Line 3:		Line 3:
	<StructureSection load='2nli' size='340' side='right'caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>		<StructureSection load='2nli' size='340' side='right'caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"gaffkya_homari"_hitchner_and_snieszko_1947 "gaffkya homari" hitchner and snieszko 1947]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2NLI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"gaffkya_homari"_hitchner_and_snieszko_1947 "gaffkya homari" hitchner and snieszko 1947]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NLI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [~~http~~://pdbe.org/2nli PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2nli PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2nli 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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [https://pdbe.org/2nli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [https://www.ebi.ac.uk/pdbsum/2nli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nli ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 2nli" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2nli" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Monooxygenase 3D structures\|Monooxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:33, 20 May 2020

OCA — Wed, 20 May 2020 06:33:20 GMT

←Older revision		Revision as of 06:33, 20 May 2020
Line 1:		Line 1:

	==Crystal Structure of the complex between L-lactate oxidase and a substrate analogue at 1.59 angstrom resolution==		==Crystal Structure of the complex between L-lactate oxidase and a substrate analogue at 1.59 angstrom resolution==
-	<StructureSection load='2nli' size='340' side='right' caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>	+	<StructureSection load='2nli' size='340' side='right'caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"gaffkya_homari"_hitchner_and_snieszko_1947 "gaffkya homari" hitchner and snieszko 1947]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2NLI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"gaffkya_homari"_hitchner_and_snieszko_1947 "gaffkya homari" hitchner and snieszko 1947]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2NLI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [http://pdbe.org/2nli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [http://www.ebi.ac.uk/pdbsum/2nli PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2nli 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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [http://pdbe.org/2nli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [http://www.ebi.ac.uk/pdbsum/2nli PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2nli ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 33:		Line 33:
	[[Category: Gaffkya homari hitchner and snieszko 1947]]		[[Category: Gaffkya homari hitchner and snieszko 1947]]
	[[Category: Lactate 2-monooxygenase]]		[[Category: Lactate 2-monooxygenase]]
		+	[[Category: Large Structures]]
	[[Category: Balasundaresan, D]]		[[Category: Balasundaresan, D]]
	[[Category: Furuichi, M]]		[[Category: Furuichi, M]]

OCA at 17:28, 15 August 2018

OCA — Wed, 15 Aug 2018 17:28:35 GMT

←Older revision		Revision as of 17:28, 15 August 2018
Line 1:		Line 1:
		+
	==Crystal Structure of the complex between L-lactate oxidase and a substrate analogue at 1.59 angstrom resolution==		==Crystal Structure of the complex between L-lactate oxidase and a substrate analogue at 1.59 angstrom resolution==
	<StructureSection load='2nli' size='340' side='right' caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>		<StructureSection load='2nli' size='340' side='right' caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [http://pdbe.org/2nli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [http://www.ebi.ac.uk/pdbsum/2nli 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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [http://pdbe.org/2nli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [http://www.ebi.ac.uk/pdbsum/2nli PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2nli ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 11:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nl/2nli_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nl/2nli_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>
	</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=2nli ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 08:47, 11 September 2015

OCA — Fri, 11 Sep 2015 08:47:33 GMT

←Older revision		Revision as of 08:47, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2nli' size='340' side='right' caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>		<StructureSection load='2nli' size='340' side='right' caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Aerococcus_viridans Aerococcus viridans~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NLI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"gaffkya_homari"_hitchner_and_snieszko_1947 "gaffkya homari" hitchner and snieszko 1947]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NLI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [http://www.ebi.ac.uk/pdbsum/2nli 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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [http://pdbe.org/2nli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [http://www.ebi.ac.uk/pdbsum/2nli PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 25:		Line 25:
	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 2nli" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aerococcus viridans~~]]	+	[[Category: Gaffkya homari hitchner and snieszko 1947]]
	[[Category: Lactate 2-monooxygenase]]		[[Category: Lactate 2-monooxygenase]]
	[[Category: Balasundaresan, D]]		[[Category: Balasundaresan, D]]

OCA at 15:54, 19 January 2015

OCA — Mon, 19 Jan 2015 15:54:34 GMT

←Older revision		Revision as of 15:54, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Aerococcus_viridans Aerococcus viridans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NLI FirstGlance]. <br>		<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Aerococcus_viridans Aerococcus viridans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NLI FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [http://www.ebi.ac.uk/pdbsum/2nli 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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [http://www.ebi.ac.uk/pdbsum/2nli 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:
	[[Category: Aerococcus viridans]]		[[Category: Aerococcus viridans]]
	[[Category: Lactate 2-monooxygenase]]		[[Category: Lactate 2-monooxygenase]]
-	[[Category: Balasundaresan, D.]]	+	[[Category: Balasundaresan, D]]
-	[[Category: Furuichi, M.]]	+	[[Category: Furuichi, M]]
-	[[Category: Kaneko, H.]]	+	[[Category: Kaneko, H]]
-	[[Category: Kumar, P K.R.]]	+	[[Category: Kumar, P K.R]]
-	[[Category: Minagawa, H.]]	+	[[Category: Minagawa, H]]
-	[[Category: Mizuno, H.]]	+	[[Category: Mizuno, H]]
-	[[Category: Suzuki, N.]]	+	[[Category: Suzuki, N]]
-	[[Category: Waga, I.]]	+	[[Category: Waga, I]]
-	[[Category: Watanabe, Y.]]	+	[[Category: Watanabe, Y]]
-	[[Category: Yoshida, Y.]]	+	[[Category: Yoshida, Y]]
	[[Category: D-lactate]]		[[Category: D-lactate]]
	[[Category: Flavoenzyme]]		[[Category: Flavoenzyme]]

OCA at 19:01, 30 September 2014

OCA — Tue, 30 Sep 2014 19:01:09 GMT

←Older revision		Revision as of 19:01, 30 September 2014
Line 1:		Line 1:
-	[[~~Image~~:2nli.~~png\|left~~\|200px]]	+	==Crystal Structure of the complex between L-lactate oxidase and a substrate analogue at 1.59 angstrom resolution==
		+	<StructureSection load='2nli' size='340' side='right' caption='[[2nli]], [[Resolution\|resolution]] 1.59Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2nli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Aerococcus_viridans Aerococcus viridans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NLI FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=LAC:LACTIC+ACID'>LAC</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lactate_2-monooxygenase Lactate 2-monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.4 1.13.12.4] </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=2nli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nli OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nli RCSB], [http://www.ebi.ac.uk/pdbsum/2nli 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/nl/2nli_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 ==
		+	L-Lactate oxidase (LOX) belongs to a family of flavin mononucleotide (FMN)-dependent alpha-hydroxy acid-oxidizing enzymes. Previously, the crystal structure of LOX (pH 8.0) from Aerococcus viridans was solved, revealing that the active site residues are located around the FMN. Here, we solved the crystal structures of the same enzyme at pH 4.5 and its complex with d-lactate at pH 4.5, in an attempt to analyze the intermediate steps. In the complex structure, the D-lactate resides in the substrate-binding site, but interestingly, an active site base, His265, flips far away from the D-lactate, as compared with its conformation in the unbound state at pH 8.0. This movement probably results from the protonation of His265 during the crystallization at pH 4.5, because the same flip is observed in the structure of the unbound state at pH 4.5. Thus, the present structure appears to mimic an intermediate after His265 abstracts a proton from the substrate. The flip of His265 triggers a large structural rearrangement, creating a new hydrogen bonding network between His265-Asp174-Lys221 and, furthermore, brings molecular oxygen in between D-lactate and His265. This mimic of the ternary complex intermediate enzyme-substrate-O(2) could explain the reductive half-reaction mechanism to release pyruvate through hydride transfer. In the mechanism of the subsequent oxidative half-reaction, His265 flips back, pushing molecular oxygen into the substrate-binding site as the second substrate, and the reverse reaction takes place to produce hydrogen peroxide. During the reaction, the flip-flop action of His265 has a dual role as an active base/acid to define the major chemical steps. Our proposed reaction mechanism appears to be a common mechanistic strategy for this family of enzymes.

-	~~{{STRUCTURE_2nli\| PDB=2nli \| SCENE= }}~~	+	X-ray structures of Aerococcus viridans lactate oxidase and its complex with D-lactate at pH 4.5 show an alpha-hydroxyacid oxidation mechanism.,Furuichi M, Suzuki N, Dhakshnamoorhty B, Minagawa H, Yamagishi R, Watanabe Y, Goto Y, Kaneko H, Yoshida Y, Yagi H, Waga I, Kumar PK, Mizuno H J Mol Biol. 2008 Apr 25;378(2):436-46. Epub 2008 Mar 3. PMID:18367206<ref>PMID:18367206</ref>

-	~~===Crystal Structure~~ of the ~~complex between L-lactate oxidase and a substrate analogue at 1~~.~~59 angstrom resolution===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18367206}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2nli]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Aerococcus_viridans Aerococcus viridans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018367206<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Aerococcus viridans]]		[[Category: Aerococcus viridans]]
	[[Category: Lactate 2-monooxygenase]]		[[Category: Lactate 2-monooxygenase]]

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

OCA — Mon, 07 Jan 2013 13:57:52 GMT

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

←Older revision

Revision as of 13:57, 7 January 2013

OCA at 13:57, 7 January 2013

OCA — Mon, 07 Jan 2013 13:57:51 GMT

←Older revision		Revision as of 13:57, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2nli.png\|left\|200px]]		[[Image:2nli.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2nli", 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_2nli\| PDB=2nli \| SCENE= }}		{{STRUCTURE_2nli\| PDB=2nli \| SCENE= }}

	===Crystal Structure of the complex between L-lactate oxidase and a substrate analogue at 1.59 angstrom resolution===		===Crystal Structure of the complex between L-lactate oxidase and a substrate analogue at 1.59 angstrom resolution===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18367206}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18367206 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18367206}}		{{ABSTRACT_PUBMED_18367206}}

	==About this Structure==		==About this Structure==
-	~~2NLI~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Aerococcus_viridans Aerococcus viridans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA].	+	[[2nli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Aerococcus_viridans Aerococcus viridans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18367206~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018367206</ref><references group="xtra"/>
	[[Category: Aerococcus viridans]]		[[Category: Aerococcus viridans]]
	[[Category: Lactate 2-monooxygenase]]		[[Category: Lactate 2-monooxygenase]]
Line 41:		Line 29:
	[[Category: L-lactate oxidase]]		[[Category: L-lactate oxidase]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 18:11:12 2009''

OCA at 16:11, 17 February 2009

OCA — Tue, 17 Feb 2009 16:11:13 GMT

←Older revision		Revision as of 16:11, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2NLI is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Aerococcus_viridans Aerococcus viridans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA].	+	2NLI is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Aerococcus_viridans Aerococcus viridans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NLI OCA].

	==Reference==		==Reference==
-	X-ray structures of Aerococcus viridans lactate oxidase and its complex with D-lactate at pH 4.5 show an alpha-hydroxyacid oxidation mechanism., Furuichi M, Suzuki N, Dhakshnamoorhty B, Minagawa H, Yamagishi R, Watanabe Y, Goto Y, Kaneko H, Yoshida Y, Yagi H, Waga I, Kumar PK, Mizuno H, J Mol Biol. 2008 Apr 25;378(2):436-46. Epub 2008 Mar 3. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18367206 18367206]~~	+	<ref group="xtra">PMID:18367206</ref><references group="xtra"/>
	[[Category: Aerococcus viridans]]		[[Category: Aerococcus viridans]]
	[[Category: Lactate 2-monooxygenase]]		[[Category: Lactate 2-monooxygenase]]
-	[[Category: Single protein]]
	[[Category: Balasundaresan, D.]]		[[Category: Balasundaresan, D.]]
	[[Category: Furuichi, M.]]		[[Category: Furuichi, M.]]
Line 43:		Line 42:
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 01~~:48:~~21 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 18:11:12 2009''