2cd8 - Revision history

OCA at 17:20, 8 September 2026

2026-09-08T17:20:23Z

← Older revision		Revision as of 17:20, 8 September 2026
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	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cd/2cd8_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cd/2cd8_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/~~initialview01~~.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>

OCA at 14:13, 13 December 2023

2023-12-13T14:13:30Z

← Older revision		Revision as of 14:13, 13 December 2023
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	<StructureSection load='2cd8' size='340' side='right'caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2cd8' size='340' side='right'caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~As_4.1526 As 4.1526~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CD8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CD8 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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</div></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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [https://pdbe.org/2cd8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [https://www.ebi.ac.uk/pdbsum/2cd8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cd8 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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [https://pdbe.org/2cd8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [https://www.ebi.ac.uk/pdbsum/2cd8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cd8 ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/PIKC_STRVZ PIKC_STRVZ] Catalyzes the hydroxylation of narbomycin to give rise to pikromycin, and of 10-deoxymethymycin (YC-17) to give rise to methymycin and neomethymycin during macrolide antibiotic biosynthesis. In addition, produces low amounts of neopicromycin, novapikromycin and novamethymycin. Requires the participation of a ferredoxin and a ferredoxin reductase for the transfer of electrons from NADPH to the monooxygenase.<ref>PMID:16825192</ref> <ref>PMID:19124459</ref> <ref>PMID:19833867</ref> <ref>PMID:24627965</ref> <ref>PMID:9778370</ref> <ref>PMID:9831532</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: As 4 1526]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Kim, Y~~]]		[[Category: Streptomyces venezuelae]]
	[[Category: ~~Podust, L M~~]]		[[Category: Kim Y]]
	[[Category: ~~Sherman, D H~~]]		[[Category: Podust LM]]
	[[Category: ~~Waterman, M R~~]]		[[Category: Sherman DH]]
	[[Category: ~~Yermalitskaya, L I~~]]		[[Category: Waterman MR]]
	[[Category: ~~Antibiotic biosynthesis]]~~		[[Category: Yermalitskaya LI]]
	~~[[Category: Cytochrome p450]]~~
	~~[[Category: Heme]]~~
	~~[[Category: Iron]]~~
	~~[[Category: Macrolide monooxygenase]]~~
	~~[[Category: Metal-binding]]~~
	~~[[Category: Oxidoreductase]]~~
	~~[[Category: Pikc]]~~
	~~[[Category: Yc-17~~]]

OCA at 06:53, 1 December 2021

2021-12-01T06:53:19Z

← Older revision		Revision as of 06:53, 1 December 2021
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	<StructureSection load='2cd8' size='340' side='right'caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2cd8' size='340' side='right'caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/As_4.1526 As 4.1526]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2CD8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/As_4.1526 As 4.1526]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CD8 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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</div></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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [~~http~~://pdbe.org/2cd8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2cd8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2cd8 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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [https://pdbe.org/2cd8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [https://www.ebi.ac.uk/pdbsum/2cd8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cd8 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 11:16, 26 February 2020

2020-02-26T11:16:09Z

← Older revision		Revision as of 11:16, 26 February 2020
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	==Crystal structure of YC-17-bound cytochrome P450 PikC (CYP107L1)==		==Crystal structure of YC-17-bound cytochrome P450 PikC (CYP107L1)==
	<StructureSection load='2cd8' size='340' side='right' caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2cd8' size='340' side='right'caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/As_4.1526 As 4.1526]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CD8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/As_4.1526 As 4.1526]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CD8 FirstGlance]. <br>
Line 29:		Line 29:

	==See Also==		==See Also==
	*[[Cytochrome P450\|Cytochrome P450]]		*[[Cytochrome P450 3D structures\|Cytochrome P450 3D structures]]
	*[[Cytochrome P450 hydroxylase\|Cytochrome P450 hydroxylase]]		*[[Cytochrome P450 hydroxylase 3D structures\|Cytochrome P450 hydroxylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: As 4 1526]]		[[Category: As 4 1526]]
			[[Category: Large Structures]]
	[[Category: Kim, Y]]		[[Category: Kim, Y]]
	[[Category: Podust, L M]]		[[Category: Podust, L M]]

OCA at 08:49, 23 May 2018

2018-05-23T08:49:09Z

← Older revision		Revision as of 08:49, 23 May 2018
Line 1:		Line 1:
	==~~CRYSTAL STRUCTURE OF~~ YC-17-~~BOUND CYTOCHROME~~ P450 ~~PIKC~~ (CYP107L1)==
			==Crystal structure of YC-17-bound cytochrome P450 PikC (CYP107L1)==
	<StructureSection load='2cd8' size='340' side='right' caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2cd8' size='340' side='right' caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 5:		Line 6:
	</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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [http://pdbe.org/2cd8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [http://www.ebi.ac.uk/pdbsum/2cd8 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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [http://pdbe.org/2cd8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [http://www.ebi.ac.uk/pdbsum/2cd8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2cd8 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cd/2cd8_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cd/2cd8_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>
Line 29:		Line 30:
	==See Also==		==See Also==
	*[[Cytochrome P450\|Cytochrome P450]]		*[[Cytochrome P450\|Cytochrome P450]]
			*[[Cytochrome P450 hydroxylase\|Cytochrome P450 hydroxylase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 23:55, 7 February 2016

2016-02-07T23:55:41Z

← Older revision		Revision as of 23:55, 7 February 2016
Line 15:		Line 15:
	<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=2cd8 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:01, 10 September 2015

2015-09-10T06:01:20Z

← Older revision		Revision as of 06:01, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2cd8' size='340' side='right' caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2cd8' size='340' side='right' caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptomyces_venezuelae Streptomyces venezuelae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CD8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/As_4.1526 As 4.1526]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CD8 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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [http://www.ebi.ac.uk/pdbsum/2cd8 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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [http://pdbe.org/2cd8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [http://www.ebi.ac.uk/pdbsum/2cd8 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 2cd8" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Streptomyces venezuelae~~]]		[[Category: As 4 1526]]
	[[Category: Kim, Y]]		[[Category: Kim, Y]]
	[[Category: Podust, L M]]		[[Category: Podust, L M]]

OCA at 17:20, 15 January 2015

2015-01-15T17:20:26Z

← Older revision		Revision as of 17:20, 15 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CD8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CD8 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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [http://www.ebi.ac.uk/pdbsum/2cd8 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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [http://www.ebi.ac.uk/pdbsum/2cd8 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 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Streptomyces venezuelae]]		[[Category: Streptomyces venezuelae]]
	[[Category: Kim, Y.]]		[[Category: Kim, Y]]
	[[Category: Podust, L M.]]		[[Category: Podust, L M]]
	[[Category: Sherman, D H.]]		[[Category: Sherman, D H]]
	[[Category: Waterman, M R.]]		[[Category: Waterman, M R]]
	[[Category: Yermalitskaya, L I.]]		[[Category: Yermalitskaya, L I]]
	[[Category: Antibiotic biosynthesis]]		[[Category: Antibiotic biosynthesis]]
	[[Category: Cytochrome p450]]		[[Category: Cytochrome p450]]

OCA at 03:49, 29 September 2014

2014-09-29T03:49:14Z

← Older revision		Revision as of 03:49, 29 September 2014
Line 1:		Line 1:
	[[Image:~~2cd8~~.~~png~~\|~~left~~\|~~200px~~]]		==CRYSTAL STRUCTURE OF YC-17-BOUND CYTOCHROME P450 PIKC (CYP107L1)==
			<StructureSection load='2cd8' size='340' side='right' caption='[[2cd8]], [[Resolution\|resolution]] 1.70Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2cd8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CD8 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=PXI:4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>PXI</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bvj\|2bvj]], [[2c6h\|2c6h]], [[2c7x\|2c7x]], [[2ca0\|2ca0]]</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=2cd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cd8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cd8 RCSB], [http://www.ebi.ac.uk/pdbsum/2cd8 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/cd/2cd8_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 ==
			The pikromycin (Pik)/methymycin biosynthetic pathway of Streptomyces venezuelae represents a valuable system for dissecting the fundamental mechanisms of modular polyketide biosynthesis, aminodeoxysugar assembly, glycosyltransfer, and hydroxylation leading to the production of a series of macrolide antibiotics, including the natural ketolides narbomycin and pikromycin. In this study, we describe four x-ray crystal structures and allied functional studies for PikC, the remarkable P450 monooxygenase responsible for production of a number of related macrolide products from the Pik pathway. The results provide important new insights into the structural basis for the C10/C12 and C12/C14 hydroxylation patterns for the 12-(YC-17) and 14-membered ring (narbomycin) macrolides, respectively. This includes two different ligand-free structures in an asymmetric unit (resolution 2.1 A) and two co-crystal structures with bound endogenous substrates YC-17 (resolution 2.35 A)or narbomycin (resolution 1.7 A). A central feature of the enzyme-substrate interaction involves anchoring of the desosamine residue in two alternative binding pockets based on a series of distinct amino acid residues that form a salt bridge and a hydrogen-bonding network with the deoxysugar C3' dimethylamino group. Functional significance of the salt bridge was corroborated by site-directed mutagenesis that revealed a key role for Glu-94 in YC-17 binding and Glu-85 for narbomycin binding. Taken together, the x-ray structure analysis, site-directed mutagenesis, and corresponding product distribution studies reveal that PikC substrate tolerance and product diversity result from a combination of alternative anchoring modes rather than an induced fit mechanism.

	~~{{STRUCTURE_2cd8\| PDB=2cd8 \| SCENE= }}~~		The structural basis for substrate anchoring, active site selectivity, and product formation by P450 PikC from Streptomyces venezuelae.,Sherman DH, Li S, Yermalitskaya LV, Kim Y, Smith JA, Waterman MR, Podust LM J Biol Chem. 2006 Sep 8;281(36):26289-97. Epub 2006 Jul 6. PMID:16825192<ref>PMID:16825192</ref>

	~~===CRYSTAL STRUCTURE OF YC-17-BOUND CYTOCHROME P450 PIKC (CYP107L1)===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_16825192}}~~

	~~==About this Structure==~~
	~~[[2cd8]] is~~ a ~~2 chain structure with sequence from [http://en.wikipedia~~.~~org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann.ac.il/oca-bin~~/~~ocashort?id=2CD8 OCA].~~

	==See Also==		==See Also==
	*[[Cytochrome P450\|Cytochrome P450]]		*[[Cytochrome P450\|Cytochrome P450]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:016825192<~~/~~ref~~><~~references group="xtra"~~/>		__TOC__
			</StructureSection>
	[[Category: Streptomyces venezuelae]]		[[Category: Streptomyces venezuelae]]
	[[Category: Kim, Y.]]		[[Category: Kim, Y.]]

OCA at 08:13, 20 October 2012

2012-10-20T08:13:23Z

← Older revision		Revision as of 08:13, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[2cd8]] is a 2 chain structure ~~of [[Cytochrome P450]]~~ with sequence from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA].		[[2cd8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CD8 OCA].

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