3bcb - Revision history

OCA at 12:07, 30 August 2023

2023-08-30T12:07:00Z

← Older revision		Revision as of 12:07, 30 August 2023
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	<StructureSection load='3bcb' size='340' side='right'caption='[[3bcb]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='3bcb' size='340' side='right'caption='[[3bcb]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BCB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BCB FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>~~, ~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 1.85Å</td></tr>
	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene><~~/td></tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;~~'>~~[[3bc8\|3bc8]], [[3bca\|3bca]]~~</~~div></td></tr>~~
	~~<tr id='gene'~~>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sepsecs, D5Ertd135e ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])~~</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=3bcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcb OCA], [https://pdbe.org/3bcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bcb RCSB], [https://www.ebi.ac.uk/pdbsum/3bcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcb 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=3bcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcb OCA], [https://pdbe.org/3bcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bcb RCSB], [https://www.ebi.ac.uk/pdbsum/3bcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/SPCS_MOUSE SPCS_MOUSE]] Converts O-phosphoseryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis (By similarity).		[https://www.uniprot.org/uniprot/SPCS_MOUSE SPCS_MOUSE] Converts O-phosphoseryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Lk3 transgenic mice~~]]		[[Category: Mus musculus]]
	[[Category: Ganichkin~~, O M~~]]		[[Category: Ganichkin OM]]
	[[Category: Wahl~~, M C]]~~		[[Category: Wahl MC]]
	~~[[Category: Disorder-order transition]]~~
	~~[[Category: Phosphate-loop]]~~
	~~[[Category: Protein biosynthesis]]~~
	~~[[Category: Pyridoxal phosphate]]~~
	~~[[Category: Selenium]]~~
	~~[[Category: Transferase~~]]

OCA at 11:30, 5 January 2022

2022-01-05T11:30:57Z

← Older revision		Revision as of 11:30, 5 January 2022
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	==Crystal structure of mouse selenocysteine synthase, sodium phosphate soak==		==Crystal structure of mouse selenocysteine synthase, sodium phosphate soak==
	<StructureSection load='3bcb' size='340' side='right' caption='[[3bcb]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='3bcb' size='340' side='right'caption='[[3bcb]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bcb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3BCB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BCB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc8\|3bc8]], [[3bca\|3bca]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3bc8\|3bc8]], [[3bca\|3bca]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sepsecs, D5Ertd135e ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sepsecs, D5Ertd135e ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3bcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcb OCA], [~~http~~://pdbe.org/3bcb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3bcb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3bcb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcb 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=3bcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcb OCA], [https://pdbe.org/3bcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bcb RCSB], [https://www.ebi.ac.uk/pdbsum/3bcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/SPCS_MOUSE SPCS_MOUSE]] Converts O-phosphoseryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis (By similarity).		[[https://www.uniprot.org/uniprot/SPCS_MOUSE SPCS_MOUSE]] Converts O-phosphoseryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis (By similarity).
	== 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: Large Structures]]
	[[Category: Lk3 transgenic mice]]		[[Category: Lk3 transgenic mice]]
	[[Category: Ganichkin, O M]]		[[Category: Ganichkin, O M]]

OCA at 08:23, 31 October 2018

2018-10-31T08:23:06Z

← Older revision		Revision as of 08:23, 31 October 2018
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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/bc/3bcb_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bc/3bcb_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 15:31, 5 August 2016

2016-08-05T15:31:05Z

← Older revision		Revision as of 15:31, 5 August 2016
Line 1:		Line 1:

	==Crystal structure of mouse selenocysteine synthase, sodium phosphate soak==		==Crystal structure of mouse selenocysteine synthase, sodium phosphate soak==
	<StructureSection load='3bcb' size='340' side='right' caption='[[3bcb]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='3bcb' size='340' side='right' caption='[[3bcb]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mus_musculus Mus musculus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:2-~~LYSINE(~~3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-~~YLMETHANE)~~'>LLP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc8\|3bc8]], [[3bca\|3bca]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc8\|3bc8]], [[3bca\|3bca]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sepsecs, D5Ertd135e ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 ~~Mus musculus~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sepsecs, D5Ertd135e ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3bcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bcb RCSB], [http://www.ebi.ac.uk/pdbsum/3bcb 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=3bcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcb OCA], [http://pdbe.org/3bcb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bcb RCSB], [http://www.ebi.ac.uk/pdbsum/3bcb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	<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=3bcb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 3bcb" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 38:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Mus musculus~~]]		[[Category: Lk3 transgenic mice]]
	[[Category: Ganichkin, O M]]		[[Category: Ganichkin, O M]]
	[[Category: Wahl, M C]]		[[Category: Wahl, M C]]

OCA at 19:55, 25 December 2014

2014-12-25T19:55:33Z

← Older revision		Revision as of 19:55, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCB FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)'>LLP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)'>LLP</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc8\|3bc8]], [[3bca\|3bca]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc8\|3bc8]], [[3bca\|3bca]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sepsecs, D5Ertd135e ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sepsecs, D5Ertd135e ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</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=3bcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bcb RCSB], [http://www.ebi.ac.uk/pdbsum/3bcb 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=3bcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bcb RCSB], [http://www.ebi.ac.uk/pdbsum/3bcb PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/SPCS_MOUSE SPCS_MOUSE]] Converts O-phosphoseryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Ganichkin, O M.]]		[[Category: Ganichkin, O M]]
	[[Category: Wahl, M C.]]		[[Category: Wahl, M C]]
	[[Category: Disorder-order transition]]		[[Category: Disorder-order transition]]
	[[Category: Phosphate-loop]]		[[Category: Phosphate-loop]]

OCA at 08:14, 29 September 2014

2014-09-29T08:14:38Z

← Older revision		Revision as of 08:14, 29 September 2014
Line 1:		Line 1:
	[[Image:~~3bcb~~.~~png~~\|~~left~~\|~~200px~~]]		==Crystal structure of mouse selenocysteine synthase, sodium phosphate soak==
			<StructureSection load='3bcb' size='340' side='right' caption='[[3bcb]], [[Resolution\|resolution]] 1.85Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[3bcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCB FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
			<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)'>LLP</scene></td></tr>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc8\|3bc8]], [[3bca\|3bca]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sepsecs, D5Ertd135e ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</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=3bcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bcb RCSB], [http://www.ebi.ac.uk/pdbsum/3bcb 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/bc/3bcb_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 ==
			In eukaryotes and Archaea, selenocysteine synthase (SecS) converts O-phospho-L-seryl-tRNA [Ser]Sec into selenocysteyl-tRNA [Ser]Sec using selenophosphate as the selenium donor compound. The molecular mechanisms underlying SecS activity are presently unknown. We have delineated a 450-residue core of mouse SecS, which retained full selenocysteyl-tRNA [Ser]Sec synthesis activity, and determined its crystal structure at 1.65 A resolution. SecS exhibits three domains that place it in the fold type I family of pyridoxal phosphate (PLP)-dependent enzymes. Two SecS monomers interact intimately and together build up two identical active sites around PLP in a Schiff-base linkage with lysine 284. Two SecS dimers further associate to form a homotetramer. The N terminus, which mediates tetramer formation, and a large insertion that remodels the active site set SecS aside from other members of the family. The active site insertion contributes to PLP binding and positions a glutamate next to the PLP, where it could repel substrates with a free alpha-carboxyl group, suggesting why SecS does not act on free O-phospho-l-serine. Upon soaking crystals in phosphate buffer, a previously disordered loop within the active site insertion contracted to form a phosphate binding site. Residues that are strictly conserved in SecS orthologs but variant in related enzymes coordinate the phosphate and upon mutation corrupt SecS activity. Modeling suggested that the phosphate loop accommodates the gamma-phosphate moiety of O-phospho-l-seryl-tRNA [Ser]Sec and, after phosphate elimination, binds selenophosphate to initiate attack on the proposed aminoacrylyl-tRNA [Ser]Sec intermediate. Based on these results and on the activity profiles of mechanism-based inhibitors, we offer a detailed reaction mechanism for the enzyme.

	~~{{STRUCTURE_3bcb\| PDB=3bcb \| SCENE= }}~~		Structure and catalytic mechanism of eukaryotic selenocysteine synthase.,Ganichkin OM, Xu XM, Carlson BA, Mix H, Hatfield DL, Gladyshev VN, Wahl MC J Biol Chem. 2008 Feb 29;283(9):5849-65. Epub 2007 Dec 19. PMID:18093968<ref>PMID:18093968</ref>

	~~===Crystal structure of mouse selenocysteine synthase~~, ~~sodium phosphate soak===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_18093968}}~~

	~~==About this Structure==~~
	~~[[3bcb]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mus_musculus Mus musculus]~~. ~~Full crystallographic information is available from [http://oca.weizmann.ac.il~~/~~oca-bin/ocashort?id=3BCB OCA].~~

	==See Also==		==See Also==
	*[[Selenocysteine synthase\|Selenocysteine synthase]]		*[[Selenocysteine synthase\|Selenocysteine synthase]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:018093968<~~/~~ref~~><~~references group="xtra"~~/>		__TOC__
			</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Ganichkin, O M.]]		[[Category: Ganichkin, O M.]]

OCA at 20:49, 20 October 2012

2012-10-20T20:49:01Z

← Older revision		Revision as of 20:49, 20 October 2012
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	==About this Structure==		==About this Structure==
	[[3bcb]] is a 1 chain structure ~~of [[Selenocysteine synthase]]~~ with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA].		[[3bcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA].

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

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

2012-07-27T11:43:03Z

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

← Older revision	Revision as of 11:43, 27 July 2012
(No difference)

OCA at 11:43, 27 July 2012

2012-07-27T11:43:02Z

← Older revision		Revision as of 11:43, 27 July 2012
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	~~{{Seed}}~~
	[[Image:3bcb.png\|left\|200px]]		[[Image:3bcb.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_3bcb", 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_3bcb\| PDB=3bcb \| SCENE= }}		{{STRUCTURE_3bcb\| PDB=3bcb \| SCENE= }}

	===Crystal structure of mouse selenocysteine synthase, sodium phosphate soak===		===Crystal structure of mouse selenocysteine synthase, sodium phosphate soak===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_18093968}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 18093968 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_18093968}}		{{ABSTRACT_PUBMED_18093968}}

	==About this Structure==		==About this Structure==
	~~3BCB~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA].		[[3bcb]] is a 1 chain structure of [[Selenocysteine synthase]] with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCB OCA].

			==See Also==
			*[[Selenocysteine synthase\|Selenocysteine synthase]]

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~18093968~~</ref><references group="xtra"/>		<ref group="xtra">PMID:018093968</ref><references group="xtra"/>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Ganichkin, O M.]]		[[Category: Ganichkin, O M.]]
	[[Category: Wahl, M C.]]		[[Category: Wahl, M C.]]
	~~[[Category: Crystal structure]]~~
	~~[[Category: Cytoplasm]]~~
	[[Category: Disorder-order transition]]		[[Category: Disorder-order transition]]
	[[Category: Phosphate-loop]]		[[Category: Phosphate-loop]]
Line 35:		Line 24:
	[[Category: Selenium]]		[[Category: Selenium]]
	[[Category: Transferase]]		[[Category: Transferase]]
	~~[[Category: X-ray crystallography]]~~

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 05:21:42 2009''~~

OCA at 03:21, 18 February 2009

2009-02-18T03:21:45Z

← Older revision		Revision as of 03:21, 18 February 2009
Line 20:		Line 20:

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

	==Reference==		==Reference==
	Structure and catalytic mechanism of eukaryotic selenocysteine synthase., Ganichkin OM, Xu XM, Carlson BA, Mix H, Hatfield DL, Gladyshev VN, Wahl MC, J Biol Chem. 2008 Feb 29;283(9):5849-65. Epub 2007 Dec 19. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18093968 18093968]~~		<ref group="xtra">PMID:18093968</ref><references group="xtra"/>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	~~[[Category: Single protein]]~~
	[[Category: Ganichkin, O M.]]		[[Category: Ganichkin, O M.]]
	[[Category: Wahl, M C.]]		[[Category: Wahl, M C.]]
Line 38:		Line 37:
	[[Category: X-ray crystallography]]		[[Category: X-ray crystallography]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 12~~:02:~~53 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 05:21:42 2009''