3d2d - Revision history

OCA at 09:46, 6 November 2024

2024-11-06T09:46:45Z

← Older revision		Revision as of 09:46, 6 November 2024
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	<StructureSection load='3d2d' size='340' side='right'caption='[[3d2d]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3d2d' size='340' side='right'caption='[[3d2d]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3d2d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~California_poppy California poppy~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3D2D FirstGlance]. <br>		<table><tr><td colspan='2'>[[3d2d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Eschscholzia_californica Eschscholzia californica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3D2D FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FAD:FLAVIN~~-~~ADENINE+DINUCLEOTIDE'>FAD</scene>~~, ~~<scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=REN:(S)-RETICULINE'>REN</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>~~</td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.796Å</td></tr>
	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[3d2h\|3d2h]], [[3d2j\|3d2j]]~~</~~div~~><~~/td></tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=REN:(S)-RETICULINE'>REN</scene></td></tr>
	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td><~~td class~~=~~"sblockDat">BBE1 ([https~~:~~//www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3467 California poppy])</td~~></tr>
	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Reticuline_oxidase Reticuline oxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.3 1.21.3.3]~~ </~~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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [https://pdbe.org/3d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [https://www.ebi.ac.uk/pdbsum/3d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3d2d 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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [https://pdbe.org/3d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [https://www.ebi.ac.uk/pdbsum/3d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3d2d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/RETO_ESCCA RETO_ESCCA]] Essential to the formation of benzophenanthridine alkaloids in the response of plants to pathogenic attack. Catalyzes the stereospecific conversion of the N-methyl moiety of (S)-reticuline into the berberine bridge carbon of (S)-scoulerine.		[https://www.uniprot.org/uniprot/RETO_ESCCA RETO_ESCCA] Essential to the formation of benzophenanthridine alkaloids in the response of plants to pathogenic attack. Catalyzes the stereospecific conversion of the N-methyl moiety of (S)-reticuline into the berberine bridge carbon of (S)-scoulerine.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d2/3d2d_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d2/3d2d_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>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~California poppy~~]]		[[Category: Eschscholzia californica]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	~~[[Category: Reticuline oxidase]]~~		[[Category: Gruber K]]
	[[Category: Gruber, K]]		[[Category: Lyskowski A]]
	[[Category: Lyskowski, A]]		[[Category: Macheroux P]]
	[[Category: Macheroux, P]]		[[Category: Winkler A]]
	[[Category: Winkler, A]]
	~~[[Category: Alakloid biosynthesis]]~~
	~~[[Category: Bi-covalent flavinylation]]~~
	~~[[Category: N-glycosylation]]~~
	~~[[Category: Oxidoreductase]]~~
	~~[[Category: Substrate complex~~]]

OCA at 07:51, 2 February 2022

2022-02-02T07:51:28Z

← Older revision		Revision as of 07:51, 2 February 2022
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	==Structure of berberine bridge enzyme in complex with (S)-reticuline==		==Structure of berberine bridge enzyme in complex with (S)-reticuline==
	<StructureSection load='3d2d' size='340' side='right' caption='[[3d2d]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3d2d' size='340' side='right'caption='[[3d2d]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3d2d]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/California_poppy California poppy]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3D2D FirstGlance]. <br>		<table><tr><td colspan='2'>[[3d2d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/California_poppy California poppy]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3D2D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=~~MAN~~:~~ALPHA~~-D-~~MANNOSE~~'>~~MAN~~</scene>, <scene name='pdbligand=~~NAG~~:N-~~ACETYL-D-GLUCOSAMINE~~'>~~NAG~~</scene>, <scene name='pdbligand=~~REN~~:~~(S)~~-~~RETICULINE~~'>~~REN~~</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=REN:(S)-RETICULINE'>REN</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3d2h\|3d2h]], [[3d2j\|3d2j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3d2h\|3d2h]], [[3d2j\|3d2j]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BBE1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3467 California poppy])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BBE1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3467 California poppy])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Reticuline_oxidase Reticuline oxidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.3 1.21.3.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Reticuline_oxidase Reticuline oxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.3 1.21.3.3] </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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [~~http~~://pdbe.org/3d2d PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3d2d PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3d2d 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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [https://pdbe.org/3d2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [https://www.ebi.ac.uk/pdbsum/3d2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3d2d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/RETO_ESCCA RETO_ESCCA]] Essential to the formation of benzophenanthridine alkaloids in the response of plants to pathogenic attack. Catalyzes the stereospecific conversion of the N-methyl moiety of (S)-reticuline into the berberine bridge carbon of (S)-scoulerine.		[[https://www.uniprot.org/uniprot/RETO_ESCCA RETO_ESCCA]] Essential to the formation of benzophenanthridine alkaloids in the response of plants to pathogenic attack. Catalyzes the stereospecific conversion of the N-methyl moiety of (S)-reticuline into the berberine bridge carbon of (S)-scoulerine.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
	*[[~~User:Andrzej Lyskowski~~\|~~User:Andrzej Lyskowski~~]]		*[[Reticuline oxidase\|Reticuline oxidase]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: California poppy]]		[[Category: California poppy]]
			[[Category: Large Structures]]
	[[Category: Reticuline oxidase]]		[[Category: Reticuline oxidase]]
	[[Category: Gruber, K]]		[[Category: Gruber, K]]

OCA at 09:26, 14 November 2018

2018-11-14T09:26:16Z

← Older revision		Revision as of 09:26, 14 November 2018
Line 1:		Line 1:

	==Structure of berberine bridge enzyme in complex with (S)-reticuline==		==Structure of berberine bridge enzyme in complex with (S)-reticuline==
	<StructureSection load='3d2d' size='340' side='right' caption='[[3d2d]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3d2d' size='340' side='right' caption='[[3d2d]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3d2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/California_poppy California poppy]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D2D FirstGlance]. <br>		<table><tr><td colspan='2'>[[3d2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/California_poppy California poppy]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D2D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=~~NAG~~:~~N-ACETYL~~-D-~~GLUCOSAMINE~~'>~~NAG~~</scene>, <scene name='pdbligand=~~REN~~:~~(S)~~-~~RETICULINE~~'>~~REN~~</scene>, <scene name='pdbligand=~~MAN~~:~~ALPHA~~-~~D-MANNOSE~~'>~~MAN~~</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=REN:(S)-RETICULINE'>REN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3d2h\|3d2h]], [[3d2j\|3d2j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3d2h\|3d2h]], [[3d2j\|3d2j]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BBE1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3467 California poppy])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BBE1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3467 California poppy])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Reticuline_oxidase Reticuline oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.3 1.21.3.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Reticuline_oxidase Reticuline oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.3 1.21.3.3] </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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [http://pdbe.org/3d2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [http://www.ebi.ac.uk/pdbsum/3d2d 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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [http://pdbe.org/3d2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [http://www.ebi.ac.uk/pdbsum/3d2d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3d2d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d2/3d2d_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d2/3d2d_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>

OCA at 00:50, 9 February 2016

2016-02-09T00:50:00Z

← Older revision		Revision as of 00:50, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3d2d' size='340' side='right' caption='[[3d2d]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3d2d' size='340' side='right' caption='[[3d2d]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3d2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Eschscholzia_californica Eschscholzia californica~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D2D FirstGlance]. <br>		<table><tr><td colspan='2'>[[3d2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/California_poppy California poppy]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D2D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=REN:(S)-RETICULINE'>REN</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=REN:(S)-RETICULINE'>REN</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3d2h\|3d2h]], [[3d2j\|3d2j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3d2h\|3d2h]], [[3d2j\|3d2j]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BBE1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3467 ~~Eschscholzia californica~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BBE1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3467 California poppy])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Reticuline_oxidase Reticuline oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.3 1.21.3.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Reticuline_oxidase Reticuline oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.3 1.21.3.3] </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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [http://www.ebi.ac.uk/pdbsum/3d2d 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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [http://pdbe.org/3d2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [http://www.ebi.ac.uk/pdbsum/3d2d PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<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=3d2d ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	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 3d2d" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Eschscholzia californica~~]]		[[Category: California poppy]]
	[[Category: Reticuline oxidase]]		[[Category: Reticuline oxidase]]
	[[Category: Gruber, K]]		[[Category: Gruber, K]]

OCA at 03:18, 25 December 2014

2014-12-25T03:18:24Z

← Older revision		Revision as of 03:18, 25 December 2014
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	<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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [http://www.ebi.ac.uk/pdbsum/3d2d 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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [http://www.ebi.ac.uk/pdbsum/3d2d PDBsum]</span></td></tr>
	</table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/RETO_ESCCA RETO_ESCCA]] Essential to the formation of benzophenanthridine alkaloids in the response of plants to pathogenic attack. Catalyzes the stereospecific conversion of the N-methyl moiety of (S)-reticuline into the berberine bridge carbon of (S)-scoulerine.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 14:03, 17 December 2014

2014-12-17T14:03:49Z

← Older revision		Revision as of 14:03, 17 December 2014
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	~~{{STRUCTURE_3d2d\| PDB=3d2d \| SCENE= }}~~		==Structure of berberine bridge enzyme in complex with (S)-reticuline==
	===Structure of berberine bridge enzyme in complex with (S)-reticuline===		<StructureSection load='3d2d' size='340' side='right' caption='[[3d2d]], [[Resolution\|resolution]] 2.80Å' scene=''>
	~~{{ABSTRACT_PUBMED_18953357}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[3d2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Eschscholzia_californica Eschscholzia californica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D2D FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=REN:(S)-RETICULINE'>REN</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
			<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3d2h\|3d2h]], [[3d2j\|3d2j]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BBE1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3467 Eschscholzia californica])</td></tr>
			<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Reticuline_oxidase Reticuline oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.21.3.3 1.21.3.3] </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=3d2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3d2d RCSB], [http://www.ebi.ac.uk/pdbsum/3d2d 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/d2/3d2d_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 ==
			Berberine bridge enzyme catalyzes the conversion of (S)-reticuline to (S)-scoulerine by formation of a carbon-carbon bond between the N-methyl group and the phenolic ring. We elucidated the structure of berberine bridge enzyme from Eschscholzia californica and determined the kinetic rates for three active site protein variants. Here we propose a catalytic mechanism combining base-catalyzed proton abstraction with concerted carbon-carbon coupling accompanied by hydride transfer from the N-methyl group to the N5 atom of the FAD cofactor.

	~~==About this Structure==~~		A concerted mechanism for berberine bridge enzyme.,Winkler A, Lyskowski A, Riedl S, Puhl M, Kutchan TM, Macheroux P, Gruber K Nat Chem Biol. 2008 Dec;4(12):739-41. Epub 2008 Oct 26. PMID:18953357<ref>PMID:18953357</ref>
	~~[[3d2d]] is a 1 chain structure with sequence from [http~~:~~//en~~.~~wikipedia~~.~~org/wiki/Eschscholzia_californica Eschscholzia californica]. Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.~~il/oca-bin~~/~~ocashort?id=3D2D OCA].~~
			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>

	==See Also==		==See Also==
	*[[User:Andrzej Lyskowski\|User:Andrzej Lyskowski]]		*[[User:Andrzej Lyskowski\|User:Andrzej Lyskowski]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:018953357<~~/~~ref~~><~~references group="xtra"~~/>		__TOC__
			</StructureSection>
	[[Category: Eschscholzia californica]]		[[Category: Eschscholzia californica]]
	[[Category: Reticuline oxidase]]		[[Category: Reticuline oxidase]]
	[[Category: Gruber, K.]]		[[Category: Gruber, K]]
	[[Category: Lyskowski, A.]]		[[Category: Lyskowski, A]]
	[[Category: Macheroux, P.]]		[[Category: Macheroux, P]]
	[[Category: Winkler, A.]]		[[Category: Winkler, A]]
	[[Category: Alakloid biosynthesis]]		[[Category: Alakloid biosynthesis]]
	[[Category: Bi-covalent flavinylation]]		[[Category: Bi-covalent flavinylation]]

OCA at 09:47, 11 March 2013

2013-03-11T09:47:49Z

← Older revision		Revision as of 09:47, 11 March 2013
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	~~[[Image:3d2d.png\|left\|200px]]~~

	{{STRUCTURE_3d2d\| PDB=3d2d \| SCENE= }}		{{STRUCTURE_3d2d\| PDB=3d2d \| SCENE= }}

	===Structure of berberine bridge enzyme in complex with (S)-reticuline===		===Structure of berberine bridge enzyme in complex with (S)-reticuline===

	{{ABSTRACT_PUBMED_18953357}}		{{ABSTRACT_PUBMED_18953357}}

OCA: Protected "3d2d" [edit=sysop:move=sysop]

2013-01-07T18:37:18Z

Protected "3d2d" [edit=sysop:move=sysop]

← Older revision	Revision as of 18:37, 7 January 2013
(No difference)

OCA at 18:37, 7 January 2013

2013-01-07T18:37:16Z

← Older revision		Revision as of 18:37, 7 January 2013
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	~~{{Seed}}~~
	[[Image:3d2d.png\|left\|200px]]		[[Image:3d2d.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_3d2d", 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_3d2d\| PDB=3d2d \| SCENE= }}		{{STRUCTURE_3d2d\| PDB=3d2d \| SCENE= }}

	===Structure of berberine bridge enzyme in complex with (S)-reticuline===		===Structure of berberine bridge enzyme in complex with (S)-reticuline===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_18953357}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 18953357 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_18953357}}		{{ABSTRACT_PUBMED_18953357}}

	==About this Structure==		==About this Structure==
	~~3D2D~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Eschscholzia_californica Eschscholzia californica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA].		[[3d2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Eschscholzia_californica Eschscholzia californica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA].

			==See Also==
			*[[User:Andrzej Lyskowski\|User:Andrzej Lyskowski]]

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~18953357~~</ref><references group="xtra"/>		<ref group="xtra">PMID:018953357</ref><references group="xtra"/>
	[[Category: Eschscholzia californica]]		[[Category: Eschscholzia californica]]
	[[Category: Reticuline oxidase]]		[[Category: Reticuline oxidase]]
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	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Substrate complex]]		[[Category: Substrate complex]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 05:01:57 2009''~~

OCA at 03:02, 17 February 2009

2009-02-17T03:02:01Z

← Older revision		Revision as of 03:02, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
	3D2D is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Eschscholzia_californica Eschscholzia californica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA].		3D2D is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Eschscholzia_californica Eschscholzia californica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D2D OCA].

	==Reference==		==Reference==
	~~A concerted mechanism for berberine bridge enzyme., Winkler A, Lyskowski A, Riedl S, Puhl M, Kutchan TM, Macheroux P, Gruber K, Nat Chem Biol. 2008 Dec;4(12):739-41. Epub 2008 Oct 26.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18953357 18953357]~~		<ref group="xtra">PMID:18953357</ref><references group="xtra"/>
	[[Category: Eschscholzia californica]]		[[Category: Eschscholzia californica]]
	[[Category: Reticuline oxidase]]		[[Category: Reticuline oxidase]]
	[[Category: ~~Single protein~~]]		[[Category: Gruber, K.]]
	[[Category: ~~Pdbx_ordinal=~~, ~~<PDBx~~:~~audit_author~~.]]		[[Category: Lyskowski, A.]]
			[[Category: Macheroux, P.]]
			[[Category: Winkler, A.]]
	[[Category: Alakloid biosynthesis]]		[[Category: Alakloid biosynthesis]]
	[[Category: Bi-covalent flavinylation]]		[[Category: Bi-covalent flavinylation]]
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	[[Category: Substrate complex]]		[[Category: Substrate complex]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Dec 24 20~~:12:~~52 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 05:01:57 2009''