3axz - Revision history

OCA at 08:49, 11 October 2023

OCA — Wed, 11 Oct 2023 08:49:14 GMT

←Older revision		Revision as of 08:49, 11 October 2023
Line 3:		Line 3:
	<StructureSection load='3axz' size='340' side='right'caption='[[3axz]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='3axz' size='340' side='right'caption='[[3axz]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3axz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Haein Haein~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3AXZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3axz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_influenzae_Rd_KW20 Haemophilus influenzae Rd KW20]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3AXZ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ADN:ADENOSINE'>ADN</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]] 2.25Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[3ay0\|3ay0]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>HI_0202, trmD ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~71421 HAEIN])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Transferase Transferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.221 and 2.1.1.228 2.1.1.221 and 2.1.1.228]~~ </~~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=3axz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3axz OCA], [https://pdbe.org/3axz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3axz RCSB], [https://www.ebi.ac.uk/pdbsum/3axz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3axz 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=3axz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3axz OCA], [https://pdbe.org/3axz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3axz RCSB], [https://www.ebi.ac.uk/pdbsum/3axz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3axz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/TRMD_HAEIN TRMD_HAEIN]] Specifically methylates guanosine-37 in various tRNAs (By similarity).[HAMAP-Rule:MF_00605]	+	[https://www.uniprot.org/uniprot/TRMD_HAEIN TRMD_HAEIN] Specifically methylates guanosine-37 in various tRNAs (By similarity).[HAMAP-Rule:MF_00605]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 28:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Haein~~]]	+	[[Category: Haemophilus influenzae Rd KW20]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Transferase]]~~	+	[[Category: Goto-Ito S]]
-	[[Category: Goto-Ito, S]]	+	[[Category: Hou YM]]
-	[[Category: Hou~~, Y M~~]]	+	[[Category: Ito T]]
-	[[Category: Ito, T]]	+	[[Category: Yokoyama S]]
-	[[Category: Yokoyama, S]]	+	[[Category: Yoshida K]]
-	[[Category: Yoshida, K]]	+
-	~~[[Category: Adomet binding]]~~	+
-	~~[[Category: Methyltransferase]]~~	+
-	~~[[Category: Trefoil knot~~]]	+

OCA at 11:16, 5 January 2022

OCA — Wed, 05 Jan 2022 11:16:37 GMT

←Older revision		Revision as of 11:16, 5 January 2022
Line 1:		Line 1:

	==Crystal structure of Haemophilus influenzae TrmD in complex with adenosine==		==Crystal structure of Haemophilus influenzae TrmD in complex with adenosine==
-	<StructureSection load='3axz' size='340' side='right' caption='[[3axz]], [[Resolution\|resolution]] 2.25Å' scene=''>	+	<StructureSection load='3axz' size='340' side='right'caption='[[3axz]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3axz]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Haein Haein]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3AXZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3axz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Haein Haein]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3AXZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ay0\|3ay0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ay0\|3ay0]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HI_0202, trmD ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=71421 HAEIN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HI_0202, trmD ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=71421 HAEIN])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Transferase Transferase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.221 and 2.1.1.228 2.1.1.221 and 2.1.1.228] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Transferase Transferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.221 and 2.1.1.228 2.1.1.221 and 2.1.1.228] </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=3axz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3axz OCA], [~~http~~://pdbe.org/3axz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3axz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3axz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3axz 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=3axz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3axz OCA], [https://pdbe.org/3axz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3axz RCSB], [https://www.ebi.ac.uk/pdbsum/3axz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3axz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/TRMD_HAEIN TRMD_HAEIN]] Specifically methylates guanosine-37 in various tRNAs (By similarity).[HAMAP-Rule:MF_00605]	+	[[https://www.uniprot.org/uniprot/TRMD_HAEIN TRMD_HAEIN]] Specifically methylates guanosine-37 in various tRNAs (By similarity).[HAMAP-Rule:MF_00605]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:

	==See Also==		==See Also==
-	*[[TRNA methyltransferase\|TRNA methyltransferase]]	+	*[[TRNA methyltransferase 3D structures\|TRNA methyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 29:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: Haein]]		[[Category: Haein]]
		+	[[Category: Large Structures]]
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Goto-Ito, S]]		[[Category: Goto-Ito, S]]

OCA at 18:41, 5 August 2016

OCA — Fri, 05 Aug 2016 18:41:55 GMT

←Older revision		Revision as of 18:41, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of Haemophilus influenzae TrmD in complex with adenosine==		==Crystal structure of Haemophilus influenzae TrmD in complex with adenosine==
	<StructureSection load='3axz' size='340' side='right' caption='[[3axz]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='3axz' size='340' side='right' caption='[[3axz]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3axz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Haemophilus_influenzae Haemophilus influenzae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3AXZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3axz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haein Haein]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3AXZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ay0\|3ay0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ay0\|3ay0]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HI_0202, trmD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~727 Haemophilus influenzae~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HI_0202, trmD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=71421 HAEIN])</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(1)-)-methyltransferase tRNA (guanine-N(1)-)-methyltransferase~~], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.31 2.1.1.31] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Transferase Transferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.221 and 2.1.1.228 2.1.1.221 and 2.1.1.228] </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=3axz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3axz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3axz RCSB], [http://www.ebi.ac.uk/pdbsum/3axz 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=3axz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3axz OCA], [http://pdbe.org/3axz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3axz RCSB], [http://www.ebi.ac.uk/pdbsum/3axz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3axz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	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 3axz" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 26:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Haemophilus influenzae~~]]	+	[[Category: Haein]]
		+	[[Category: Transferase]]
	[[Category: Goto-Ito, S]]		[[Category: Goto-Ito, S]]
	[[Category: Hou, Y M]]		[[Category: Hou, Y M]]
Line 34:		Line 37:
	[[Category: Adomet binding]]		[[Category: Adomet binding]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]
-	[[Category: Transferase]]
	[[Category: Trefoil knot]]		[[Category: Trefoil knot]]

OCA at 04:54, 25 December 2014

OCA — Thu, 25 Dec 2014 04:54:41 GMT

←Older revision		Revision as of 04:54, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3axz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3AXZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[3axz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3AXZ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ay0\|3ay0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ay0\|3ay0]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HI_0202, trmD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HI_0202, trmD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_(guanine-N(1)-)-methyltransferase tRNA (guanine-N(1)-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.31 2.1.1.31] </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(1)-)-methyltransferase tRNA (guanine-N(1)-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.31 2.1.1.31] </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=3axz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3axz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3axz RCSB], [http://www.ebi.ac.uk/pdbsum/3axz 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=3axz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3axz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3axz RCSB], [http://www.ebi.ac.uk/pdbsum/3axz PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TRMD_HAEIN TRMD_HAEIN]] Specifically methylates guanosine-37 in various tRNAs (By similarity).[HAMAP-Rule:MF_00605]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 15:		Line 17:
	Differentiating analogous tRNA methyltransferases by fragments of the methyl donor.,Lahoud G, Goto-Ito S, Yoshida K, Ito T, Yokoyama S, Hou YM RNA. 2011 Jul;17(7):1236-46. Epub 2011 May 20. PMID:21602303<ref>PMID:21602303</ref>		Differentiating analogous tRNA methyltransferases by fragments of the methyl donor.,Lahoud G, Goto-Ito S, Yoshida K, Ito T, Yokoyama S, Hou YM RNA. 2011 Jul;17(7):1236-46. Epub 2011 May 20. PMID:21602303<ref>PMID:21602303</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
		+
		+	==See Also==
		+	*[[TRNA methyltransferase\|TRNA methyltransferase]]
	== References ==		== References ==
	<references/>		<references/>
Line 22:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
-	[[Category: Goto-Ito, S.]]	+	[[Category: Goto-Ito, S]]
-	[[Category: Hou, Y M.]]	+	[[Category: Hou, Y M]]
-	[[Category: Ito, T.]]	+	[[Category: Ito, T]]
-	[[Category: Yokoyama, S.]]	+	[[Category: Yokoyama, S]]
-	[[Category: Yoshida, K.]]	+	[[Category: Yoshida, K]]
	[[Category: Adomet binding]]		[[Category: Adomet binding]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Trefoil knot]]		[[Category: Trefoil knot]]

OCA at 11:06, 14 May 2014

OCA — Wed, 14 May 2014 11:06:23 GMT

←Older revision		Revision as of 11:06, 14 May 2014
Line 1:		Line 1:
-	[[~~Image:~~3axz.~~jpg~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of Haemophilus influenzae TrmD in complex with adenosine==
		+	<StructureSection load='3axz' size='340' side='right' caption='[[3axz]], [[Resolution\|resolution]] 2.25Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3axz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3AXZ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ay0\|3ay0]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HI_0202, trmD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_(guanine-N(1)-)-methyltransferase tRNA (guanine-N(1)-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.31 2.1.1.31] </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=3axz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3axz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3axz RCSB], [http://www.ebi.ac.uk/pdbsum/3axz PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bacterial TrmD and eukaryotic-archaeal Trm5 form a pair of analogous tRNA methyltransferase that catalyze methyl transfer from S-adenosyl methionine (AdoMet) to N(1) of G37, using catalytic motifs that share no sequence or structural homology. Here we show that natural and synthetic analogs of AdoMet are unable to distinguish TrmD from Trm5. Instead, fragments of AdoMet, adenosine and methionine, are selectively inhibitory of TrmD rather than Trm5. Detailed structural information of the two enzymes in complex with adenosine reveals how Trm5 escapes targeting by adopting an altered structure, whereas TrmD is trapped by targeting due to its rigid structure that stably accommodates the fragment. Free energy analysis exposes energetic disparities between the two enzymes in how they approach the binding of AdoMet versus fragments and provides insights into the design of inhibitors selective for TrmD.

-	<!--	+	Differentiating analogous tRNA methyltransferases by fragments of the methyl donor.,Lahoud G, Goto-Ito S, Yoshida K, Ito T, Yokoyama S, Hou YM RNA. 2011 Jul;17(7):1236-46. Epub 2011 May 20. PMID:21602303<ref>PMID:21602303</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3axz"~~, ~~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_3axz\| PDB=3axz \| SCENE= }}~~	+

-	~~===Crystal structure~~ of ~~Haemophilus influenzae TrmD in complex with adenosine===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_21602303}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 21602303 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_21602303}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3axz]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:021602303<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
	[[Category: Goto-Ito, S.]]		[[Category: Goto-Ito, S.]]

OCA at 06:14, 17 August 2011

OCA — Wed, 17 Aug 2011 06:14:04 GMT

←Older revision		Revision as of 06:14, 17 August 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3axz.jpg\|left\|200px]]

-	The ~~entry 3axz~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3axz", 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_3axz\| PDB=3axz \| SCENE= }}

-	~~Authors: Yoshida, K., Goto-Ito, S., Ito, T., Hou, Y.-M., Yokoyama, S.~~	+	===Crystal structure of Haemophilus influenzae TrmD in complex with adenosine===

-	~~Description~~: ~~Crystal~~ structure of Haemophilus influenzae ~~TrmD in complex with adenosine~~	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21602303}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21602303 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21602303}}
		+
		+	==About this Structure==
		+	[[3axz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AXZ OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021602303</ref><references group="xtra"/>
		+	[[Category: Haemophilus influenzae]]
		+	[[Category: Goto-Ito, S.]]
		+	[[Category: Hou, Y M.]]
		+	[[Category: Ito, T.]]
		+	[[Category: Yokoyama, S.]]
		+	[[Category: Yoshida, K.]]
		+	[[Category: Adomet binding]]
		+	[[Category: Methyltransferase]]
		+	[[Category: Transferase]]
		+	[[Category: Trefoil knot]]

OCA at 05:05, 18 May 2011

OCA — Wed, 18 May 2011 05:05:30 GMT

←Older revision		Revision as of 05:05, 18 May 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3axz is ON HOLD	+	The entry 3axz is ON HOLD until Paper Publication

-	Authors: Yoshida, K., Goto-Ito, S., Ito, T., Yokoyama, S.	+	Authors: Yoshida, K., Goto-Ito, S., Ito, T., Hou, Y.-M., Yokoyama, S.

	Description: Crystal structure of Haemophilus influenzae TrmD in complex with adenosine		Description: Crystal structure of Haemophilus influenzae TrmD in complex with adenosine

OCA at 04:12, 12 May 2011

OCA — Thu, 12 May 2011 04:12:59 GMT

←Older revision		Revision as of 04:12, 12 May 2011
Line 3:		Line 3:
	The entry 3axz is ON HOLD		The entry 3axz is ON HOLD

-	Authors: Yoshida, K, Goto-Ito, S, Ito, T, Yokoyama, S	+	Authors: Yoshida, K., Goto-Ito, S., Ito, T., Yokoyama, S.

	Description: Crystal structure of Haemophilus influenzae TrmD in complex with adenosine		Description: Crystal structure of Haemophilus influenzae TrmD in complex with adenosine

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

OCA — Wed, 27 Apr 2011 06:46:52 GMT

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

←Older revision

Revision as of 06:46, 27 April 2011

OCA: New page: '''Unreleased structure''' The entry 3axz is ON HOLD Authors: Yoshida, K, Goto-Ito, S, Ito, T, Yokoyama, S Description: Crystal structure of Haemophilus influenzae TrmD in complex with...

OCA — Wed, 27 Apr 2011 06:46:51 GMT

New page: '''Unreleased structure''' The entry 3axz is ON HOLD Authors: Yoshida, K, Goto-Ito, S, Ito, T, Yokoyama, S Description: Crystal structure of Haemophilus influenzae TrmD in complex with...

New page

'''Unreleased structure'''

The entry 3axz is ON HOLD

Authors: Yoshida, K, Goto-Ito, S, Ito, T, Yokoyama, S

Description: Crystal structure of Haemophilus influenzae TrmD in complex with adenosine