1jbm - Revision history

OCA at 08:37, 16 August 2023

OCA — Wed, 16 Aug 2023 08:37:58 GMT

←Older revision		Revision as of 08:37, 16 August 2023
Line 3:		Line 3:
	<StructureSection load='1jbm' size='340' side='right'caption='[[1jbm]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='1jbm' size='340' side='right'caption='[[1jbm]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1jbm]] is a 7 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1JBM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1jbm]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JBM FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>~~, ~~<scene name='pdbligand=EDO:~~1~~,2-ETHANEDIOL'>EDO</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='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])~~</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=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [https://pdbe.org/1jbm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [https://www.ebi.ac.uk/pdbsum/1jbm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jbm ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [~~http~~://pdbe.org/1jbm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1jbm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1jbm ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/RUXX_METTH RUXX_METTH]
	== 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: ~~Eisenberg, D~~]]	+	[[Category: Methanothermobacter thermautotrophicus]]
-	[[Category: ~~Mura, C~~]]	+	[[Category: Eisenberg D]]
-	[[Category: ~~All beta-strand]]~~	+	[[Category: Mura C]]
-	~~[[Category: Ring-shaped homoheptamer]]~~	+
-	~~[[Category: Structural genomic~~]]	+

OCA at 07:29, 25 November 2020

OCA — Wed, 25 Nov 2020 07:29:38 GMT

←Older revision		Revision as of 07:29, 25 November 2020
Line 1:		Line 1:

	==Heptameric crystal structure of Mth649, an Sm-like archaeal protein from Methanobacterium thermautotrophicum==		==Heptameric crystal structure of Mth649, an Sm-like archaeal protein from Methanobacterium thermautotrophicum==
-	<StructureSection load='1jbm' size='340' side='right' caption='[[1jbm]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='1jbm' size='340' side='right'caption='[[1jbm]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1jbm]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1JBM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1jbm]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1JBM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</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=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [http://pdbe.org/1jbm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [http://www.ebi.ac.uk/pdbsum/1jbm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1jbm ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [http://pdbe.org/1jbm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [http://www.ebi.ac.uk/pdbsum/1jbm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1jbm ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1jbm" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1jbm" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Sm-like protein\|Sm-like protein]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Eisenberg, D]]		[[Category: Eisenberg, D]]
	[[Category: Mura, C]]		[[Category: Mura, C]]

OCA at 09:17, 17 January 2018

OCA — Wed, 17 Jan 2018 09:17:57 GMT

←Older revision		Revision as of 09:17, 17 January 2018
Line 1:		Line 1:
		+
	==Heptameric crystal structure of Mth649, an Sm-like archaeal protein from Methanobacterium thermautotrophicum==		==Heptameric crystal structure of Mth649, an Sm-like archaeal protein from Methanobacterium thermautotrophicum==
	<StructureSection load='1jbm' size='340' side='right' caption='[[1jbm]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='1jbm' size='340' side='right' caption='[[1jbm]], [[Resolution\|resolution]] 1.85Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</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=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [http://pdbe.org/1jbm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [http://www.ebi.ac.uk/pdbsum/1jbm 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=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [http://pdbe.org/1jbm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [http://www.ebi.ac.uk/pdbsum/1jbm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1jbm ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jb/1jbm_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jb/1jbm_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 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1jbm" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1jbm" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Sm-like protein\|Sm-like protein]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 05:14, 9 February 2016

OCA — Tue, 09 Feb 2016 05:14:07 GMT

←Older revision		Revision as of 05:14, 9 February 2016
Line 16:		Line 16:
	<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=1jbm ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 18:58, 10 September 2015

OCA — Thu, 10 Sep 2015 18:58:34 GMT

←Older revision		Revision as of 18:58, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1jbm' size='340' side='right' caption='[[1jbm]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='1jbm' size='340' side='right' caption='[[1jbm]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1jbm]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JBM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1jbm]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JBM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 ~~Methanothermobacter thermautotrophicus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</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=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [http://www.ebi.ac.uk/pdbsum/1jbm 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=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [http://pdbe.org/1jbm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [http://www.ebi.ac.uk/pdbsum/1jbm PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 1jbm" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Methanothermobacter thermautotrophicus]]
	[[Category: Eisenberg, D]]		[[Category: Eisenberg, D]]
	[[Category: Mura, C]]		[[Category: Mura, C]]

OCA at 12:23, 2 January 2015

OCA — Fri, 02 Jan 2015 12:23:24 GMT

←Older revision		Revision as of 12:23, 2 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1jbm]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JBM FirstGlance]. <br>		<table><tr><td colspan='2'>[[1jbm]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JBM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 Methanothermobacter thermautotrophicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 Methanothermobacter thermautotrophicus])</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=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [http://www.ebi.ac.uk/pdbsum/1jbm 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=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [http://www.ebi.ac.uk/pdbsum/1jbm PDBsum]</span></td></tr>
-	<table>	+	</table>
	== 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: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
-	[[Category: Eisenberg, D.]]	+	[[Category: Eisenberg, D]]
-	[[Category: Mura, C.]]	+	[[Category: Mura, C]]
	[[Category: All beta-strand]]		[[Category: All beta-strand]]
	[[Category: Ring-shaped homoheptamer]]		[[Category: Ring-shaped homoheptamer]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 11:29, 28 September 2014

OCA — Sun, 28 Sep 2014 11:29:55 GMT

←Older revision		Revision as of 11:29, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1jbm.~~png~~\|~~left~~\|200px]]	+	==Heptameric crystal structure of Mth649, an Sm-like archaeal protein from Methanobacterium thermautotrophicum==
		+	<StructureSection load='1jbm' size='340' side='right' caption='[[1jbm]], [[Resolution\|resolution]] 1.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1jbm]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JBM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i81\|1i81]], [[1i8f\|1i8f]], [[1b34\|1b34]], [[1d3b\|1d3b]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mth0649 ORF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 Methanothermobacter thermautotrophicus])</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=1jbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jbm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1jbm RCSB], [http://www.ebi.ac.uk/pdbsum/1jbm 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/jb/1jbm_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 ==
		+	Intron splicing is a prime example of the many types of RNA processing catalyzed by small nuclear ribonucleoprotein (snRNP) complexes. Sm proteins form the cores of most snRNPs, and thus to learn principles of snRNP assembly we characterized the oligomerization and ligand-binding properties of Sm-like archaeal proteins (SmAPs) from Pyrobaculum aerophilum (Pae) and Methanobacterium thermautotrophicum (Mth). Ultracentrifugation shows that Mth SmAP1 is exclusively heptameric in solution, whereas Pae SmAP1 forms either disulfide-bonded 14-mers or sub-heptameric states (depending on the redox potential). By electron microscopy, we show that Pae and Mth SmAP1 polymerize into bundles of well ordered fibers that probably form by head-to-tail stacking of heptamers. The crystallographic results reported here corroborate these findings by showing heptamers and 14-mers of both Mth and Pae SmAP1 in four new crystal forms. The 1.9 A-resolution structure of Mth SmAP1 bound to uridine-5'-monophosphate (UMP) reveals conserved ligand-binding sites. The likely RNA binding site in Mth agrees with that determined for Archaeoglobus fulgidus (Afu) SmAP1. Finally, we found that both Pae and Mth SmAP1 gel-shift negatively supercoiled DNA. These results distinguish SmAPs from eukaryotic Sm proteins and suggest that SmAPs have a generic single-stranded nucleic acid-binding activity.

-	~~{{STRUCTURE_1jbm\| PDB=1jbm \| SCENE= }}~~	+	The oligomerization and ligand-binding properties of Sm-like archaeal proteins (SmAPs).,Mura C, Kozhukhovsky A, Gingery M, Phillips M, Eisenberg D Protein Sci. 2003 Apr;12(4):832-47. PMID:12649441<ref>PMID:12649441</ref>

-	~~===Heptameric crystal structure of Mth649~~, ~~an Sm-like archaeal protein from Methanobacterium thermautotrophicum===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12649441}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1jbm]] is~~ a ~~7 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA].~~	+

	==See Also==		==See Also==
	*[[Sm-like protein\|Sm-like protein]]		*[[Sm-like protein\|Sm-like protein]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:012649441<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
	[[Category: Eisenberg, D.]]		[[Category: Eisenberg, D.]]

OCA: Protected "1jbm" [edit=sysop:move=sysop]

OCA — Wed, 05 Dec 2012 11:32:54 GMT

Protected "1jbm" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:32, 5 December 2012

OCA at 11:32, 5 December 2012

OCA — Wed, 05 Dec 2012 11:32:50 GMT

←Older revision		Revision as of 11:32, 5 December 2012
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-	{{Seed}}
	[[Image:1jbm.png\|left\|200px]]		[[Image:1jbm.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1jbm", 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_1jbm\| PDB=1jbm \| SCENE= }}		{{STRUCTURE_1jbm\| PDB=1jbm \| SCENE= }}

	===Heptameric crystal structure of Mth649, an Sm-like archaeal protein from Methanobacterium thermautotrophicum===		===Heptameric crystal structure of Mth649, an Sm-like archaeal protein from Methanobacterium thermautotrophicum===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12649441}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12649441 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12649441}}		{{ABSTRACT_PUBMED_12649441}}

	==About this Structure==		==About this Structure==
-	~~1JBM~~ is a 7 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA].	+	[[1jbm]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA].
		+
		+	==See Also==
		+	*[[Sm-like protein\|Sm-like protein]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12649441~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012649441</ref><references group="xtra"/>
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
	[[Category: Eisenberg, D.]]		[[Category: Eisenberg, D.]]
Line 29:		Line 20:
	[[Category: All beta-strand]]		[[Category: All beta-strand]]
	[[Category: Ring-shaped homoheptamer]]		[[Category: Ring-shaped homoheptamer]]
-		+	[[Category: Structural genomic]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 06:45:27 2009''~~	+

OCA at 04:45, 17 February 2009

OCA — Tue, 17 Feb 2009 04:45:28 GMT

←Older revision		Revision as of 04:45, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1JBM is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA].	+	1JBM is a 7 chains structure of sequences from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JBM OCA].

	==Reference==		==Reference==
-	~~The oligomerization and ligand-binding properties of Sm-like archaeal proteins (SmAPs)., Mura C, Kozhukhovsky A, Gingery M, Phillips M, Eisenberg D, Protein Sci. 2003 Apr;12(4):832-47.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/12649441 12649441]~~	+	<ref group="xtra">PMID:12649441</ref><references group="xtra"/>
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
-	[[Category: Single protein]]
	[[Category: Eisenberg, D.]]		[[Category: Eisenberg, D.]]
	[[Category: Mura, C.]]		[[Category: Mura, C.]]
Line 31:		Line 30:
	[[Category: Ring-shaped homoheptamer]]		[[Category: Ring-shaped homoheptamer]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 1 19~~:58:~~50 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 06:45:27 2009''