4due - Revision history

OCA at 14:45, 14 March 2024

OCA — Thu, 14 Mar 2024 14:45:13 GMT

←Older revision		Revision as of 14:45, 14 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4due]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Priestia_megaterium Priestia megaterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4DUE FirstGlance]. <br>		<table><tr><td colspan='2'>[[4due]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Priestia_megaterium Priestia megaterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4DUE FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SRO:SEROTONIN'>SRO</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]] 1.7Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SRO:SEROTONIN'>SRO</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=4due FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4due OCA], [https://pdbe.org/4due PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4due RCSB], [https://www.ebi.ac.uk/pdbsum/4due PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4due 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=4due FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4due OCA], [https://pdbe.org/4due PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4due RCSB], [https://www.ebi.ac.uk/pdbsum/4due PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4due ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CPXB_PRIM2 CPXB_PRIM2]] Functions as a fatty acid monooxygenase (PubMed:3106359, PubMed:1727637, PubMed:16566047, PubMed:7578081, PubMed:11695892, PubMed:14653735, PubMed:16403573, PubMed:18004886, PubMed:17077084, PubMed:17868686, PubMed:18298086, PubMed:18619466, PubMed:18721129, PubMed:19492389, PubMed:20180779, PubMed:21110374, PubMed:21875028). Catalyzes hydroxylation of fatty acids at omega-1, omega-2 and omega-3 positions (PubMed:1727637, PubMed:21875028). Shows activity toward medium and long-chain fatty acids, with optimum chain lengths of 12, 14 and 16 carbons (lauric, myristic, and palmitic acids). Able to metabolize some of these primary metabolites to secondary and tertiary products (PubMed:1727637). Marginal activity towards short chain lengths of 8-10 carbons (PubMed:1727637, PubMed:18619466). Hydroxylates highly branched fatty acids, which play an essential role in membrane fluidity regulation (PubMed:16566047). Also displays a NADPH-dependent reductase activity in the C-terminal domain, which allows electron transfer from NADPH to the heme iron of the cytochrome P450 N-terminal domain (PubMed:3106359, PubMed:1727637, PubMed:16566047, PubMed:7578081, PubMed:11695892, PubMed:14653735, PubMed:16403573, PubMed:18004886, PubMed:17077084, PubMed:17868686, PubMed:18298086, PubMed:18619466, PubMed:18721129, PubMed:19492389, PubMed:20180779, PubMed:21110374, PubMed:21875028). Involved in inactivation of quorum sensing signals of other competing bacteria by oxidazing efficiently acyl homoserine lactones (AHLs), molecules involved in quorum sensing signaling pathways, and their lactonolysis products acyl homoserines (AHs) (PubMed:18020460).<ref>PMID:11695892</ref> <ref>PMID:14653735</ref> <ref>PMID:16403573</ref> <ref>PMID:16566047</ref> <ref>PMID:17077084</ref> <ref>PMID:1727637</ref> <ref>PMID:17868686</ref> <ref>PMID:18004886</ref> <ref>PMID:18020460</ref> <ref>PMID:18298086</ref> <ref>PMID:18619466</ref> <ref>PMID:18721129</ref> <ref>PMID:19492389</ref> <ref>PMID:20180779</ref> <ref>PMID:21110374</ref> <ref>PMID:21875028</ref> <ref>PMID:3106359</ref> <ref>PMID:7578081</ref>	+	[https://www.uniprot.org/uniprot/CPXB_PRIM2 CPXB_PRIM2] Functions as a fatty acid monooxygenase (PubMed:3106359, PubMed:1727637, PubMed:16566047, PubMed:7578081, PubMed:11695892, PubMed:14653735, PubMed:16403573, PubMed:18004886, PubMed:17077084, PubMed:17868686, PubMed:18298086, PubMed:18619466, PubMed:18721129, PubMed:19492389, PubMed:20180779, PubMed:21110374, PubMed:21875028). Catalyzes hydroxylation of fatty acids at omega-1, omega-2 and omega-3 positions (PubMed:1727637, PubMed:21875028). Shows activity toward medium and long-chain fatty acids, with optimum chain lengths of 12, 14 and 16 carbons (lauric, myristic, and palmitic acids). Able to metabolize some of these primary metabolites to secondary and tertiary products (PubMed:1727637). Marginal activity towards short chain lengths of 8-10 carbons (PubMed:1727637, PubMed:18619466). Hydroxylates highly branched fatty acids, which play an essential role in membrane fluidity regulation (PubMed:16566047). Also displays a NADPH-dependent reductase activity in the C-terminal domain, which allows electron transfer from NADPH to the heme iron of the cytochrome P450 N-terminal domain (PubMed:3106359, PubMed:1727637, PubMed:16566047, PubMed:7578081, PubMed:11695892, PubMed:14653735, PubMed:16403573, PubMed:18004886, PubMed:17077084, PubMed:17868686, PubMed:18298086, PubMed:18619466, PubMed:18721129, PubMed:19492389, PubMed:20180779, PubMed:21110374, PubMed:21875028). Involved in inactivation of quorum sensing signals of other competing bacteria by oxidazing efficiently acyl homoserine lactones (AHLs), molecules involved in quorum sensing signaling pathways, and their lactonolysis products acyl homoserines (AHs) (PubMed:18020460).<ref>PMID:11695892</ref> <ref>PMID:14653735</ref> <ref>PMID:16403573</ref> <ref>PMID:16566047</ref> <ref>PMID:17077084</ref> <ref>PMID:1727637</ref> <ref>PMID:17868686</ref> <ref>PMID:18004886</ref> <ref>PMID:18020460</ref> <ref>PMID:18298086</ref> <ref>PMID:18619466</ref> <ref>PMID:18721129</ref> <ref>PMID:19492389</ref> <ref>PMID:20180779</ref> <ref>PMID:21110374</ref> <ref>PMID:21875028</ref> <ref>PMID:3106359</ref> <ref>PMID:7578081</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	New tools that allow dynamic visualization of molecular neural events are important for studying the basis of brain activity and disease. Sensors that permit ligand-sensitive magnetic resonance imaging (MRI) are useful reagents due to the noninvasive nature and good temporal and spatial resolution of MR methods. Paramagnetic metalloproteins can be effective MRI sensors due to the selectivity imparted by the protein active site and the ability to tune protein properties using techniques such as directed evolution. Here, we show that structure-guided directed evolution of the active site of the cytochrome P450-BM3 heme domain produces highly selective MRI probes with submicromolar affinities for small molecules. We report a new, high-affinity dopamine sensor as well as the first MRI reporter for serotonin, with which we demonstrate quantification of neurotransmitter release in vitro. We also present a detailed structural analysis of evolved cytochrome P450-BM3 heme domain lineages to systematically dissect the molecular basis of neurotransmitter binding affinity, selectivity, and enhanced MRI contrast activity in these engineered proteins.	+
-		+
-	Structure-Guided Directed Evolution of Highly Selective P450-Based Magnetic Resonance Imaging Sensors for Dopamine and Serotonin.,Brustad EM, Lelyveld VS, Snow CD, Crook N, Jung ST, Martinez FM, Scholl TJ, Jasanoff A, Arnold FH J Mol Biol. 2012 May 30. PMID:22659321<ref>PMID:22659321</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 4due" style="background-color:#fffaf0;"></div~~>	+

	==See Also==		==See Also==

OCA at 08:38, 21 September 2022

OCA — Wed, 21 Sep 2022 08:38:59 GMT

←Older revision		Revision as of 08:38, 21 September 2022
Line 1:		Line 1:

	==cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin==		==cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin==
-	<StructureSection load='4due' size='340' side='right' caption='[[4due]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='4due' size='340' side='right'caption='[[4due]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4due]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_14581 Atcc 14581~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4DUE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4due]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Priestia_megaterium Priestia megaterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4DUE FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SRO:SEROTONIN'>SRO</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SRO:SEROTONIN'>SRO</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dtw\|4dtw]], [[4dty\|4dty]], [[4dtz\|4dtz]], [[4du2\|4du2]], [[4dua\|4dua]], [[4dub\|4dub]], [[4duc\|4duc]], [[4dud\|4dud]], [[4duf\|4duf]]</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=4due FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4due OCA], [https://pdbe.org/4due PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4due RCSB], [https://www.ebi.ac.uk/pdbsum/4due PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4due ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CYP102A1, cyp102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1404 ATCC 14581])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unspecific_monooxygenase Unspecific monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.14.1 1.14.14.1] </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=4due FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4due OCA], [~~http~~://pdbe.org/4due PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4due RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4due PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4due ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/~~CPXB_BACME CPXB_BACME~~]] Functions as a fatty acid monooxygenase. Catalyzes hydroxylation of ~~medium and long-chain~~ fatty acids at omega-1, omega-2 and omega-3 positions, with optimum chain lengths of 12-16 carbons (lauric, myristic, and palmitic acids). ~~The~~ reductase domain ~~is required for~~ electron transfer from ~~NADP~~ to cytochrome P450.	+	[[https://www.uniprot.org/uniprot/CPXB_PRIM2 CPXB_PRIM2]] Functions as a fatty acid monooxygenase (PubMed:3106359, PubMed:1727637, PubMed:16566047, PubMed:7578081, PubMed:11695892, PubMed:14653735, PubMed:16403573, PubMed:18004886, PubMed:17077084, PubMed:17868686, PubMed:18298086, PubMed:18619466, PubMed:18721129, PubMed:19492389, PubMed:20180779, PubMed:21110374, PubMed:21875028). Catalyzes hydroxylation of fatty acids at omega-1, omega-2 and omega-3 positions (PubMed:1727637, PubMed:21875028). Shows activity toward medium and long-chain fatty acids, with optimum chain lengths of 12, 14 and 16 carbons (lauric, myristic, and palmitic acids). Able to metabolize some of these primary metabolites to secondary and tertiary products (PubMed:1727637). Marginal activity towards short chain lengths of 8-10 carbons (PubMed:1727637, PubMed:18619466). Hydroxylates highly branched fatty acids, which play an essential role in membrane fluidity regulation (PubMed:16566047). Also displays a NADPH-dependent reductase activity in the C-terminal domain, which allows electron transfer from NADPH to the heme iron of the cytochrome P450 N-terminal domain (PubMed:3106359, PubMed:1727637, PubMed:16566047, PubMed:7578081, PubMed:11695892, PubMed:14653735, PubMed:16403573, PubMed:18004886, PubMed:17077084, PubMed:17868686, PubMed:18298086, PubMed:18619466, PubMed:18721129, PubMed:19492389, PubMed:20180779, PubMed:21110374, PubMed:21875028). Involved in inactivation of quorum sensing signals of other competing bacteria by oxidazing efficiently acyl homoserine lactones (AHLs), molecules involved in quorum sensing signaling pathways, and their lactonolysis products acyl homoserines (AHs) (PubMed:18020460).<ref>PMID:11695892</ref> <ref>PMID:14653735</ref> <ref>PMID:16403573</ref> <ref>PMID:16566047</ref> <ref>PMID:17077084</ref> <ref>PMID:1727637</ref> <ref>PMID:17868686</ref> <ref>PMID:18004886</ref> <ref>PMID:18020460</ref> <ref>PMID:18298086</ref> <ref>PMID:18619466</ref> <ref>PMID:18721129</ref> <ref>PMID:19492389</ref> <ref>PMID:20180779</ref> <ref>PMID:21110374</ref> <ref>PMID:21875028</ref> <ref>PMID:3106359</ref> <ref>PMID:7578081</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 20:

	==See Also==		==See Also==
-	*[[Cytochrome P450\|Cytochrome P450]]	+	*[[Cytochrome P450 3D structures\|Cytochrome P450 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 14581~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Unspecific monooxygenase~~]]	+	[[Category: Priestia megaterium]]
-	[[Category: Arnold~~, F H~~]]	+	[[Category: Arnold FH]]
-	[[Category: Brustad~~, E M~~]]	+	[[Category: Brustad EM]]
-	[[Category: Crook, N]]	+	[[Category: Crook N]]
-	[[Category: Jasanoff, A]]	+	[[Category: Jasanoff A]]
-	[[Category: Lelyveld~~, V S~~]]	+	[[Category: Lelyveld VS]]
-	[[Category: Martinez~~, F M~~]]	+	[[Category: Martinez FM]]
-	[[Category: Scholl~~, T J~~]]	+	[[Category: Scholl TJ]]
-	[[Category: Snow~~, C D]]~~	+	[[Category: Snow CD]]
-	~~[[Category: Cytochrome p450]]~~	+
-	~~[[Category: Directed evolution]]~~	+
-	~~[[Category: Mri contrast sensor]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 08:54, 5 August 2016

OCA — Fri, 05 Aug 2016 08:54:12 GMT

←Older revision		Revision as of 08:54, 5 August 2016
Line 1:		Line 1:
		+
	==cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin==		==cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin==
	<StructureSection load='4due' size='340' side='right' caption='[[4due]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4due' size='340' side='right' caption='[[4due]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4due]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_megaterium Bacillus megaterium~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4DUE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4due]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_14581 Atcc 14581]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4DUE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SRO:SEROTONIN'>SRO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SRO:SEROTONIN'>SRO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dtw\|4dtw]], [[4dty\|4dty]], [[4dtz\|4dtz]], [[4du2\|4du2]], [[4dua\|4dua]], [[4dub\|4dub]], [[4duc\|4duc]], [[4dud\|4dud]], [[4duf\|4duf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dtw\|4dtw]], [[4dty\|4dty]], [[4dtz\|4dtz]], [[4du2\|4du2]], [[4dua\|4dua]], [[4dub\|4dub]], [[4duc\|4duc]], [[4dud\|4dud]], [[4duf\|4duf]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CYP102A1, cyp102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1404 ~~Bacillus megaterium~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CYP102A1, cyp102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1404 ATCC 14581])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unspecific_monooxygenase Unspecific monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.14.1 1.14.14.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unspecific_monooxygenase Unspecific monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.14.1 1.14.14.1] </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=4due FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4due OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4due RCSB], [http://www.ebi.ac.uk/pdbsum/4due 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=4due FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4due OCA], [http://pdbe.org/4due PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4due RCSB], [http://www.ebi.ac.uk/pdbsum/4due PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4due ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	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 4due" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 26:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus megaterium~~]]	+	[[Category: Atcc 14581]]
	[[Category: Unspecific monooxygenase]]		[[Category: Unspecific monooxygenase]]
	[[Category: Arnold, F H]]		[[Category: Arnold, F H]]

OCA at 17:26, 25 December 2014

OCA — Thu, 25 Dec 2014 17:26:43 GMT

←Older revision		Revision as of 17:26, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4due]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_megaterium Bacillus megaterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4DUE FirstGlance]. <br>		<table><tr><td colspan='2'>[[4due]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_megaterium Bacillus megaterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4DUE FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SRO:SEROTONIN'>SRO</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SRO:SEROTONIN'>SRO</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dtw\|4dtw]], [[4dty\|4dty]], [[4dtz\|4dtz]], [[4du2\|4du2]], [[4dua\|4dua]], [[4dub\|4dub]], [[4duc\|4duc]], [[4dud\|4dud]], [[4duf\|4duf]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dtw\|4dtw]], [[4dty\|4dty]], [[4dtz\|4dtz]], [[4du2\|4du2]], [[4dua\|4dua]], [[4dub\|4dub]], [[4duc\|4duc]], [[4dud\|4dud]], [[4duf\|4duf]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CYP102A1, cyp102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1404 Bacillus megaterium])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CYP102A1, cyp102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1404 Bacillus megaterium])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unspecific_monooxygenase Unspecific monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.14.1 1.14.14.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unspecific_monooxygenase Unspecific monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.14.1 1.14.14.1] </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=4due FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4due OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4due RCSB], [http://www.ebi.ac.uk/pdbsum/4due 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=4due FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4due OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4due RCSB], [http://www.ebi.ac.uk/pdbsum/4due PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CPXB_BACME CPXB_BACME]] Functions as a fatty acid monooxygenase. Catalyzes hydroxylation of medium and long-chain fatty acids at omega-1, omega-2 and omega-3 positions, with optimum chain lengths of 12-16 carbons (lauric, myristic, and palmitic acids). The reductase domain is required for electron transfer from NADP to cytochrome P450.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 28:
	[[Category: Bacillus megaterium]]		[[Category: Bacillus megaterium]]
	[[Category: Unspecific monooxygenase]]		[[Category: Unspecific monooxygenase]]
-	[[Category: Arnold, F H.]]	+	[[Category: Arnold, F H]]
-	[[Category: Brustad, E M.]]	+	[[Category: Brustad, E M]]
-	[[Category: Crook, N.]]	+	[[Category: Crook, N]]
-	[[Category: Jasanoff, A.]]	+	[[Category: Jasanoff, A]]
-	[[Category: Lelyveld, V S.]]	+	[[Category: Lelyveld, V S]]
-	[[Category: Martinez, F M.]]	+	[[Category: Martinez, F M]]
-	[[Category: Scholl, T J.]]	+	[[Category: Scholl, T J]]
-	[[Category: Snow, C D.]]	+	[[Category: Snow, C D]]
	[[Category: Cytochrome p450]]		[[Category: Cytochrome p450]]
	[[Category: Directed evolution]]		[[Category: Directed evolution]]
	[[Category: Mri contrast sensor]]		[[Category: Mri contrast sensor]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 09:17, 11 June 2014

OCA — Wed, 11 Jun 2014 09:17:38 GMT

←Older revision		Revision as of 09:17, 11 June 2014
Line 1:		Line 1:
-	[[~~Image:~~4due.~~png~~\|~~left~~\|~~200px~~]]	+	==cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin==
		+	<StructureSection load='4due' size='340' side='right' caption='[[4due]], [[Resolution\|resolution]] 1.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4due]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_megaterium Bacillus megaterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4DUE FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SRO:SEROTONIN'>SRO</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dtw\|4dtw]], [[4dty\|4dty]], [[4dtz\|4dtz]], [[4du2\|4du2]], [[4dua\|4dua]], [[4dub\|4dub]], [[4duc\|4duc]], [[4dud\|4dud]], [[4duf\|4duf]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CYP102A1, cyp102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1404 Bacillus megaterium])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unspecific_monooxygenase Unspecific monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.14.1 1.14.14.1] </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=4due FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4due OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4due RCSB], [http://www.ebi.ac.uk/pdbsum/4due PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	New tools that allow dynamic visualization of molecular neural events are important for studying the basis of brain activity and disease. Sensors that permit ligand-sensitive magnetic resonance imaging (MRI) are useful reagents due to the noninvasive nature and good temporal and spatial resolution of MR methods. Paramagnetic metalloproteins can be effective MRI sensors due to the selectivity imparted by the protein active site and the ability to tune protein properties using techniques such as directed evolution. Here, we show that structure-guided directed evolution of the active site of the cytochrome P450-BM3 heme domain produces highly selective MRI probes with submicromolar affinities for small molecules. We report a new, high-affinity dopamine sensor as well as the first MRI reporter for serotonin, with which we demonstrate quantification of neurotransmitter release in vitro. We also present a detailed structural analysis of evolved cytochrome P450-BM3 heme domain lineages to systematically dissect the molecular basis of neurotransmitter binding affinity, selectivity, and enhanced MRI contrast activity in these engineered proteins.

-	~~{{STRUCTURE_4due\| PDB=4due \| SCENE= }}~~	+	Structure-Guided Directed Evolution of Highly Selective P450-Based Magnetic Resonance Imaging Sensors for Dopamine and Serotonin.,Brustad EM, Lelyveld VS, Snow CD, Crook N, Jung ST, Martinez FM, Scholl TJ, Jasanoff A, Arnold FH J Mol Biol. 2012 May 30. PMID:22659321<ref>PMID:22659321</ref>

-	~~===cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_22659321}}~~	+	==See Also==
-		+	*[[Cytochrome P450\|Cytochrome P450]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~4due~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_megaterium Bacillus megaterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:022659321<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Bacillus megaterium]]		[[Category: Bacillus megaterium]]
	[[Category: Unspecific monooxygenase]]		[[Category: Unspecific monooxygenase]]

OCA at 05:37, 29 August 2012

OCA — Wed, 29 Aug 2012 05:37:40 GMT

←Older revision		Revision as of 05:37, 29 August 2012
Line 1:		Line 1:
-	[[Image:4due.~~jpg~~\|left\|200px]]	+	[[Image:4due.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_4due", 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_4due\| PDB=4due \| SCENE= }}		{{STRUCTURE_4due\| PDB=4due \| SCENE= }}

	===cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin===		===cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_22659321}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 22659321 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_22659321}}		{{ABSTRACT_PUBMED_22659321}}

OCA at 06:06, 13 June 2012

OCA — Wed, 13 Jun 2012 06:06:42 GMT

←Older revision		Revision as of 06:06, 13 June 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4due.jpg\|left\|200px]]

-	The ~~entry 4due~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_4due", 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_4due\| PDB=4due \| SCENE= }}

-	~~Authors: Brustad, E.M., Lelyveld, V.S., Snow, C.D., Crook, N., Martinez, F.M., Scholl, T.J., Jasanoff, A., Arnold, F.H.~~	+	===cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin===

-	~~Description~~: ~~cytochrome P450 BM3h~~-~~2G9C6 MRI~~ sensor ~~bound to serotonin~~	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_22659321}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 22659321 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_22659321}}
		+
		+	==About this Structure==
		+	[[4due]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_megaterium Bacillus megaterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DUE OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022659321</ref><references group="xtra"/>
		+	[[Category: Bacillus megaterium]]
		+	[[Category: Unspecific monooxygenase]]
		+	[[Category: Arnold, F H.]]
		+	[[Category: Brustad, E M.]]
		+	[[Category: Crook, N.]]
		+	[[Category: Jasanoff, A.]]
		+	[[Category: Lelyveld, V S.]]
		+	[[Category: Martinez, F M.]]
		+	[[Category: Scholl, T J.]]
		+	[[Category: Snow, C D.]]
		+	[[Category: Cytochrome p450]]
		+	[[Category: Directed evolution]]
		+	[[Category: Mri contrast sensor]]
		+	[[Category: Oxidoreductase]]

OCA at 07:20, 28 March 2012

OCA — Wed, 28 Mar 2012 07:20:25 GMT

←Older revision		Revision as of 07:20, 28 March 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Brustad, E.M., Lelyveld, V.S., Snow, C.D., Crook, N., Martinez, F.M., Scholl, T.J., Jasanoff, A., Arnold, F.H.		Authors: Brustad, E.M., Lelyveld, V.S., Snow, C.D., Crook, N., Martinez, F.M., Scholl, T.J., Jasanoff, A., Arnold, F.H.

	Description: cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin		Description: cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin

OCA at 05:26, 8 March 2012

OCA — Thu, 08 Mar 2012 05:26:13 GMT

←Older revision		Revision as of 05:26, 8 March 2012
Line 3:		Line 3:
	The entry 4due is ON HOLD		The entry 4due is ON HOLD

-	Authors: Brustad, E.M., Lelyveld, V.S., Snow, C.D., Crook, N., Martinez, F.M, Scholl, T.J., Jasanoff, A., Arnold, F.H.	+	Authors: Brustad, E.M., Lelyveld, V.S., Snow, C.D., Crook, N., Martinez, F.M., Scholl, T.J., Jasanoff, A., Arnold, F.H.

	Description: cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin		Description: cytochrome P450 BM3h-2G9C6 MRI sensor bound to serotonin

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

OCA — Wed, 29 Feb 2012 08:28:28 GMT

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

←Older revision

Revision as of 08:28, 29 February 2012