2fca - Revision history

OCA at 09:22, 14 February 2024

OCA — Wed, 14 Feb 2024 09:22:39 GMT

←Older revision		Revision as of 09:22, 14 February 2024
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	<StructureSection load='2fca' size='340' side='right'caption='[[2fca]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='2fca' size='340' side='right'caption='[[2fca]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2fca]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FCA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2fca]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FCA FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=K:POTASSIUM+ION'>K</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]] 2.1Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>trmB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1423~~ "~~Bacillus globigii~~" ~~Migula 1900])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>[https://en.wikipedia.org/wiki/tRNA_(guanine(46)-N(7))-methyltransferase tRNA (guanine(46)-N(7))-methyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </~~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=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [https://pdbe.org/2fca PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [https://www.ebi.ac.uk/pdbsum/2fca PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fca 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=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [https://pdbe.org/2fca PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [https://www.ebi.ac.uk/pdbsum/2fca PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fca ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/TRMB_BACSU TRMB_BACSU]] Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA.[HAMAP-Rule:MF_01057]	+	[https://www.uniprot.org/uniprot/TRMB_BACSU TRMB_BACSU] Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA.[HAMAP-Rule:MF_01057]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 21:		Line 20:
	</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=2fca 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=2fca ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The structure of Bacillus subtilis TrmB (BsTrmB), the tRNA (m7G46) methyltransferase, was determined at a resolution of 2.1 A. This is the first structure of a member of the TrmB family to be determined by X-ray crystallography. It reveals a unique variant of the Rossmann-fold methyltransferase (RFM) structure, with the N-terminal helix folded on the opposite site of the catalytic domain. The architecture of the active site and a computational docking model of BsTrmB in complex with the methyl group donor S-adenosyl-L-methionine and the tRNA substrate provide an explanation for results from mutagenesis studies of an orthologous enzyme from Escherichia coli (EcTrmB). However, unlike EcTrmB, BsTrmB is shown here to be dimeric both in the crystal and in solution. The dimer interface has a hydrophobic core and buries a potassium ion and five water molecules. The evolutionary analysis of the putative interface residues in the TrmB family suggests that homodimerization may be a specific feature of TrmBs from Bacilli, which may represent an early stage of evolution to an obligatory dimer.
-
-	Crystal structure of Bacillus subtilis TrmB, the tRNA (m7G46) methyltransferase.,Zegers I, Gigot D, van Vliet F, Tricot C, Aymerich S, Bujnicki JM, Kosinski J, Droogmans L Nucleic Acids Res. 2006 Apr 5;34(6):1925-34. Print 2006. PMID:16600901<ref>PMID:16600901</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2fca" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[TRNA methyltransferase 3D structures\|TRNA methyltransferase 3D structures]]		*[[TRNA methyltransferase 3D structures\|TRNA methyltransferase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus ~~globigii migula 1900~~]]	+	[[Category: Bacillus subtilis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bujnicki, J]]	+	[[Category: Bujnicki J]]
-	[[Category: Droogmans, L]]	+	[[Category: Droogmans L]]
-	[[Category: Gigot, D]]	+	[[Category: Gigot D]]
-	[[Category: Kosinski, J]]	+	[[Category: Kosinski J]]
-	[[Category: Vliet, F ~~Van~~]]	+	[[Category: Van Vliet F]]
-	[[Category: Zegers, I]]	+	[[Category: Zegers I]]
-	~~[[Category: Methyltransferase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:14, 24 February 2021

OCA — Wed, 24 Feb 2021 07:14:42 GMT

←Older revision		Revision as of 07:14, 24 February 2021
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	==The structure of BsTrmB==		==The structure of BsTrmB==
-	<StructureSection load='2fca' size='340' side='right' caption='[[2fca]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='2fca' size='340' side='right'caption='[[2fca]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2fca]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2FCA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2fca]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FCA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trmB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Bacillus globigii" Migula 1900])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trmB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Bacillus globigii" Migula 1900])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/tRNA_(guanine(46)-N(7))-methyltransferase tRNA (guanine(46)-N(7))-methyltransferase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/tRNA_(guanine(46)-N(7))-methyltransferase tRNA (guanine(46)-N(7))-methyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </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=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [~~http~~://pdbe.org/2fca PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2fca PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2fca 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=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [https://pdbe.org/2fca PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [https://www.ebi.ac.uk/pdbsum/2fca PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fca ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/TRMB_BACSU TRMB_BACSU]] Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA.[HAMAP-Rule:MF_01057]	+	[[https://www.uniprot.org/uniprot/TRMB_BACSU TRMB_BACSU]] Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA.[HAMAP-Rule:MF_01057]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fc/2fca_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fc/2fca_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 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 2fca" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2fca" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[TRNA methyltransferase 3D structures\|TRNA methyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus globigii migula 1900]]		[[Category: Bacillus globigii migula 1900]]
		+	[[Category: Large Structures]]
	[[Category: Bujnicki, J]]		[[Category: Bujnicki, J]]
	[[Category: Droogmans, L]]		[[Category: Droogmans, L]]

OCA at 07:36, 18 October 2017

OCA — Wed, 18 Oct 2017 07:36:43 GMT

←Older revision		Revision as of 07:36, 18 October 2017
Line 1:		Line 1:
		+
	==The structure of BsTrmB==		==The structure of BsTrmB==
	<StructureSection load='2fca' size='340' side='right' caption='[[2fca]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='2fca' size='340' side='right' caption='[[2fca]], [[Resolution\|resolution]] 2.10Å' scene=''>
Line 6:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trmB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Bacillus globigii" Migula 1900])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trmB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Bacillus globigii" Migula 1900])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_(guanine(46)-N(7))-methyltransferase tRNA (guanine(46)-N(7))-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_(guanine(46)-N(7))-methyltransferase tRNA (guanine(46)-N(7))-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </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=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [http://pdbe.org/2fca PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [http://www.ebi.ac.uk/pdbsum/2fca 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=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [http://pdbe.org/2fca PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [http://www.ebi.ac.uk/pdbsum/2fca PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2fca ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 2fca" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2fca" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[TRNA methyltransferase\|TRNA methyltransferase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:31, 7 February 2016

OCA — Sun, 07 Feb 2016 11:31:45 GMT

←Older revision		Revision as of 11:31, 7 February 2016
Line 18:		Line 18:
	<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=2fca ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:04, 10 September 2015

OCA — Thu, 10 Sep 2015 01:04:48 GMT

←Older revision		Revision as of 01:04, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2fca' size='340' side='right' caption='[[2fca]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='2fca' size='340' side='right' caption='[[2fca]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2fca]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_subtilis Bacillus subtilis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FCA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2fca]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FCA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trmB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus ~~subtilis~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trmB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Bacillus globigii" Migula 1900])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_(guanine-N(7)-)-methyltransferase tRNA (guanine-N(7)-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_(guanine(46)-N(7))-methyltransferase tRNA (guanine(46)-N(7))-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </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=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [http://www.ebi.ac.uk/pdbsum/2fca 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=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [http://pdbe.org/2fca PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [http://www.ebi.ac.uk/pdbsum/2fca PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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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 2fca" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus ~~subtilis~~]]	+	[[Category: Bacillus globigii migula 1900]]
	[[Category: Bujnicki, J]]		[[Category: Bujnicki, J]]
	[[Category: Droogmans, L]]		[[Category: Droogmans, L]]

OCA at 14:45, 24 December 2014

OCA — Wed, 24 Dec 2014 14:45:21 GMT

←Older revision		Revision as of 14:45, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2fca]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FCA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2fca]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FCA FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trmB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trmB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_(guanine-N(7)-)-methyltransferase tRNA (guanine-N(7)-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_(guanine-N(7)-)-methyltransferase tRNA (guanine-N(7)-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [http://www.ebi.ac.uk/pdbsum/2fca 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=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [http://www.ebi.ac.uk/pdbsum/2fca PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TRMB_BACSU TRMB_BACSU]] Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA.[HAMAP-Rule:MF_01057]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
-	[[Category: Bujnicki, J.]]	+	[[Category: Bujnicki, J]]
-	[[Category: Droogmans, L.]]	+	[[Category: Droogmans, L]]
-	[[Category: Gigot, D.]]	+	[[Category: Gigot, D]]
-	[[Category: Kosinski, J.]]	+	[[Category: Kosinski, J]]
-	[[Category: Vliet, F Van.]]	+	[[Category: Vliet, F Van]]
-	[[Category: Zegers, I.]]	+	[[Category: Zegers, I]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 00:22, 30 September 2014

OCA — Tue, 30 Sep 2014 00:22:56 GMT

←Older revision		Revision as of 00:22, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2fca.~~png~~\|~~left~~\|200px]]	+	==The structure of BsTrmB==
		+	<StructureSection load='2fca' size='340' side='right' caption='[[2fca]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2fca]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FCA FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trmB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_(guanine-N(7)-)-methyltransferase tRNA (guanine-N(7)-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.33 2.1.1.33] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2fca FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fca OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fca RCSB], [http://www.ebi.ac.uk/pdbsum/2fca 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/fc/2fca_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The structure of Bacillus subtilis TrmB (BsTrmB), the tRNA (m7G46) methyltransferase, was determined at a resolution of 2.1 A. This is the first structure of a member of the TrmB family to be determined by X-ray crystallography. It reveals a unique variant of the Rossmann-fold methyltransferase (RFM) structure, with the N-terminal helix folded on the opposite site of the catalytic domain. The architecture of the active site and a computational docking model of BsTrmB in complex with the methyl group donor S-adenosyl-L-methionine and the tRNA substrate provide an explanation for results from mutagenesis studies of an orthologous enzyme from Escherichia coli (EcTrmB). However, unlike EcTrmB, BsTrmB is shown here to be dimeric both in the crystal and in solution. The dimer interface has a hydrophobic core and buries a potassium ion and five water molecules. The evolutionary analysis of the putative interface residues in the TrmB family suggests that homodimerization may be a specific feature of TrmBs from Bacilli, which may represent an early stage of evolution to an obligatory dimer.

-	~~{{STRUCTURE_2fca\| PDB=2fca \| SCENE= }}~~	+	Crystal structure of Bacillus subtilis TrmB, the tRNA (m7G46) methyltransferase.,Zegers I, Gigot D, van Vliet F, Tricot C, Aymerich S, Bujnicki JM, Kosinski J, Droogmans L Nucleic Acids Res. 2006 Apr 5;34(6):1925-34. Print 2006. PMID:16600901<ref>PMID:16600901</ref>

-	~~===The structure~~ of ~~BsTrmB===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_16600901}}~~	+	==See Also==
-		+	*[[TRNA methyltransferase\|TRNA methyltransferase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2fca~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:016600901<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: Bujnicki, J.]]		[[Category: Bujnicki, J.]]

OCA: Protected "2fca" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 13:14:05 GMT

Protected "2fca" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:14, 7 January 2013

OCA at 13:14, 7 January 2013

OCA — Mon, 07 Jan 2013 13:14:01 GMT

←Older revision		Revision as of 13:14, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2fca.png\|left\|200px]]		[[Image:2fca.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2fca", 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_2fca\| PDB=2fca \| SCENE= }}		{{STRUCTURE_2fca\| PDB=2fca \| SCENE= }}

	===The structure of BsTrmB===		===The structure of BsTrmB===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16600901}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16600901 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16600901}}		{{ABSTRACT_PUBMED_16600901}}

	==About this Structure==		==About this Structure==
-	~~2FCA~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA].	+	[[2fca]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16600901~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016600901</ref><references group="xtra"/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: Bujnicki, J.]]		[[Category: Bujnicki, J.]]
Line 32:		Line 20:
	[[Category: Zegers, I.]]		[[Category: Zegers, I.]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]
-		+	[[Category: Transferase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Mon Feb 16 13:30:58 2009''~~	+

OCA at 11:30, 16 February 2009

OCA — Mon, 16 Feb 2009 11:30:58 GMT

←Older revision		Revision as of 11:30, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2FCA is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA].	+	2FCA is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCA OCA].

	==Reference==		==Reference==
-	Crystal structure of Bacillus subtilis TrmB, the tRNA (m7G46) methyltransferase., Zegers I, Gigot D, van Vliet F, Tricot C, Aymerich S, Bujnicki JM, Kosinski J, Droogmans L, Nucleic Acids Res. 2006 Apr 5;34(6):1925-34. Print 2006. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/16600901 16600901]~~	+	<ref group="xtra">PMID:16600901</ref><references group="xtra"/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
-	[[Category: Single protein]]
	[[Category: Bujnicki, J.]]		[[Category: Bujnicki, J.]]
	[[Category: Droogmans, L.]]		[[Category: Droogmans, L.]]
Line 34:		Line 33:
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun Jul 27 15~~:56:~~54 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:30:58 2009''