3hfy - Revision history

OCA at 19:21, 29 May 2024

2024-05-29T19:21:03Z

←Older revision		Revision as of 19:21, 29 May 2024
Line 3:		Line 3:
	<StructureSection load='3hfy' size='340' side='right'caption='[[3hfy]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='3hfy' size='340' side='right'caption='[[3hfy]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3hfy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"achromobacter_anaerobium"_(sic)_shimwell_1937 "achromobacter anaerobium" (sic) shimwell 1937~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HFY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3hfy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Zymomonas_mobilis Zymomonas mobilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HFY FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;'>[[3eos\|3eos]]~~, [[~~1p0e~~\|~~1p0e]], [[1p0d\|1p0d~~]]~~</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>tgt ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~542~~ "~~Achromobacter anaerobium~~" ~~(sic) Shimwell 1937])</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(34)_transglycosylase tRNA-guanine(34) transglycosylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.29 2.4.2.29]~~ </~~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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [https://pdbe.org/3hfy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [https://www.ebi.ac.uk/pdbsum/3hfy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hfy 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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [https://pdbe.org/3hfy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [https://www.ebi.ac.uk/pdbsum/3hfy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hfy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/TGT_ZYMMO TGT_ZYMMO]] Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). After this exchange, a cyclopentendiol moiety is attached to the 7-aminomethyl group of 7-deazaguanine, resulting in the hypermodified nucleoside queuosine (Q) (7-(((4,5-cis-dihydroxy-2-cyclopenten-1-yl)amino)methyl)-7-deazaguanosine).[HAMAP-Rule:MF_00168]	+	[https://www.uniprot.org/uniprot/TGT_ZYMMO TGT_ZYMMO] Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). After this exchange, a cyclopentendiol moiety is attached to the 7-aminomethyl group of 7-deazaguanine, resulting in the hypermodified nucleoside queuosine (Q) (7-(((4,5-cis-dihydroxy-2-cyclopenten-1-yl)amino)methyl)-7-deazaguanosine).[HAMAP-Rule:MF_00168]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 31:

	==See Also==		==See Also==
-	*[[TRNA-guanine transglycosylase\|TRNA-guanine transglycosylase]]	+	*[[TRNA-guanine transglycosylase 3D structures\|TRNA-guanine transglycosylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Klebe, G~~]]	+	[[Category: Zymomonas mobilis]]
-	[[Category: ~~Ritschel, T~~]]	+	[[Category: Klebe G]]
-	[[Category: ~~Dimer interface]]~~	+	[[Category: Ritschel T]]
-	~~[[Category: Glycosyltransferase]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Mutation]]~~	+
-	~~[[Category: Queuosine biosynthesis]]~~	+
-	~~[[Category: Tgt]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Trna processing]]~~	+
-	~~[[Category: Zinc~~]]	+

OCA at 07:43, 10 November 2021

2021-11-10T07:43:57Z

←Older revision		Revision as of 07:43, 10 November 2021
Line 1:		Line 1:

	==Mutant of tRNA-guanine transglycosylase (K52M)==		==Mutant of tRNA-guanine transglycosylase (K52M)==
-	<StructureSection load='3hfy' size='340' side='right' caption='[[3hfy]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='3hfy' size='340' side='right'caption='[[3hfy]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3hfy]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"achromobacter_anaerobium"_(sic)_shimwell_1937 "achromobacter anaerobium" (sic) shimwell 1937]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3HFY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3hfy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"achromobacter_anaerobium"_(sic)_shimwell_1937 "achromobacter anaerobium" (sic) shimwell 1937]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HFY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eos\|3eos]], [[1p0e\|1p0e]], [[1p0d\|1p0d]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3eos\|3eos]], [[1p0e\|1p0e]], [[1p0d\|1p0d]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tgt ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=542 "Achromobacter anaerobium" (sic) Shimwell 1937])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tgt ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=542 "Achromobacter anaerobium" (sic) Shimwell 1937])</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(34)_transglycosylase tRNA-guanine(34) transglycosylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.29 2.4.2.29] </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(34)_transglycosylase tRNA-guanine(34) transglycosylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.29 2.4.2.29] </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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [~~http~~://pdbe.org/3hfy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3hfy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3hfy 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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [https://pdbe.org/3hfy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [https://www.ebi.ac.uk/pdbsum/3hfy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hfy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/TGT_ZYMMO TGT_ZYMMO]] Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). After this exchange, a cyclopentendiol moiety is attached to the 7-aminomethyl group of 7-deazaguanine, resulting in the hypermodified nucleoside queuosine (Q) (7-(((4,5-cis-dihydroxy-2-cyclopenten-1-yl)amino)methyl)-7-deazaguanosine).[HAMAP-Rule:MF_00168]	+	[[https://www.uniprot.org/uniprot/TGT_ZYMMO TGT_ZYMMO]] Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). After this exchange, a cyclopentendiol moiety is attached to the 7-aminomethyl group of 7-deazaguanine, resulting in the hypermodified nucleoside queuosine (Q) (7-(((4,5-cis-dihydroxy-2-cyclopenten-1-yl)amino)methyl)-7-deazaguanosine).[HAMAP-Rule:MF_00168]
	== 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/hf/3hfy_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hf/3hfy_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 31:		Line 31:
	</div>		</div>
	<div class="pdbe-citations 3hfy" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3hfy" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[TRNA-guanine transglycosylase\|TRNA-guanine transglycosylase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Klebe, G]]		[[Category: Klebe, G]]
	[[Category: Ritschel, T]]		[[Category: Ritschel, T]]

OCA at 07:32, 1 November 2017

2017-11-01T07:32:19Z

←Older revision		Revision as of 07:32, 1 November 2017
Line 1:		Line 1:
		+
	==Mutant of tRNA-guanine transglycosylase (K52M)==		==Mutant of tRNA-guanine transglycosylase (K52M)==
	<StructureSection load='3hfy' size='340' side='right' caption='[[3hfy]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='3hfy' size='340' side='right' caption='[[3hfy]], [[Resolution\|resolution]] 2.00Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tgt ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=542 "Achromobacter anaerobium" (sic) Shimwell 1937])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tgt ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=542 "Achromobacter anaerobium" (sic) Shimwell 1937])</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(34)_transglycosylase tRNA-guanine(34) transglycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.29 2.4.2.29] </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(34)_transglycosylase tRNA-guanine(34) transglycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.29 2.4.2.29] </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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [http://pdbe.org/3hfy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [http://www.ebi.ac.uk/pdbsum/3hfy 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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [http://pdbe.org/3hfy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [http://www.ebi.ac.uk/pdbsum/3hfy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3hfy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 30:		Line 31:
	</div>		</div>
	<div class="pdbe-citations 3hfy" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3hfy" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[TRNA-guanine transglycosylase\|TRNA-guanine transglycosylase]]
	== References ==		== References ==
	<references/>		<references/>
Line 47:		Line 45:
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Trna processing]]		[[Category: Trna processing]]
		+	[[Category: Zinc]]

OCA at 01:52, 8 February 2016

2016-02-08T01:52:18Z

←Older revision		Revision as of 01:52, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='3hfy' size='340' side='right' caption='[[3hfy]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='3hfy' size='340' side='right' caption='[[3hfy]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3hfy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Zymomonas_mobilis Zymomonas mobilis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3HFY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3hfy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_anaerobium"_(sic)_shimwell_1937 "achromobacter anaerobium" (sic) shimwell 1937]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3HFY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eos\|3eos]], [[1p0e\|1p0e]], [[1p0d\|1p0d]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eos\|3eos]], [[1p0e\|1p0e]], [[1p0d\|1p0d]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tgt ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=542 ~~Zymomonas mobilis~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tgt ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=542 "Achromobacter anaerobium" (sic) Shimwell 1937])</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_transglycosylase~~ tRNA-guanine transglycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.29 2.4.2.29] </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(34)_transglycosylase tRNA-guanine(34) transglycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.29 2.4.2.29] </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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [http://www.ebi.ac.uk/pdbsum/3hfy 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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [http://pdbe.org/3hfy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [http://www.ebi.ac.uk/pdbsum/3hfy PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3hfy ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3hfy" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Zymomonas mobilis]]
-	[[Category: TRNA-guanine transglycosylase]]
	[[Category: Klebe, G]]		[[Category: Klebe, G]]
	[[Category: Ritschel, T]]		[[Category: Ritschel, T]]

OCA at 19:41, 24 December 2014

2014-12-24T19:41:41Z

←Older revision		Revision as of 19:41, 24 December 2014
Line 9:		Line 9:
	<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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [http://www.ebi.ac.uk/pdbsum/3hfy 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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [http://www.ebi.ac.uk/pdbsum/3hfy PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TGT_ZYMMO TGT_ZYMMO]] Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). After this exchange, a cyclopentendiol moiety is attached to the 7-aminomethyl group of 7-deazaguanine, resulting in the hypermodified nucleoside queuosine (Q) (7-(((4,5-cis-dihydroxy-2-cyclopenten-1-yl)amino)methyl)-7-deazaguanosine).[HAMAP-Rule:MF_00168]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:38, 8 December 2014

2014-12-08T08:38:41Z

←Older revision		Revision as of 08:38, 8 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3hfy.~~png~~\|~~left~~\|200px]]	+	==Mutant of tRNA-guanine transglycosylase (K52M)==
		+	<StructureSection load='3hfy' size='340' side='right' caption='[[3hfy]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3hfy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Zymomonas_mobilis Zymomonas mobilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3HFY FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eos\|3eos]], [[1p0e\|1p0e]], [[1p0d\|1p0d]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tgt ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=542 Zymomonas mobilis])</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_transglycosylase tRNA-guanine transglycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.29 2.4.2.29] </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=3hfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hfy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3hfy RCSB], [http://www.ebi.ac.uk/pdbsum/3hfy 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/hf/3hfy_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 tRNA-modifying enzyme tRNA-guanine transglycosylase (Tgt) is a putative target for new selective antibiotics against Shigella bacteria. The formation of a Tgt homodimer was suggested on the basis of several crystal structures of Tgt in complex with RNA. In the present study, noncovalent mass spectrometry was used (i) to confirm the dimeric oligomerization state of Tgt in solution and (ii) to evidence the binding stoichiometry of the complex formed between Tgt and its full-length substrate tRNA. To further investigate the importance of Tgt protein-protein interaction, point mutations were introduced into the dimer interface in order to study their influence on the formation of the catalytically active complex. Enzyme kinetics revealed a reduced catalytic activity of these mutated variants, which could be related to a destabilization of the dimer formation as evidenced by both noncovalent mass spectrometry and X-ray crystallography. Finally, the effect of inhibitor binding was investigated by noncovalent mass spectrometry, thus providing the binding stoichiometries of Tgt:inhibitor complexes and showing competitive interactions in the presence of tRNA. Inhibitors that display an influence on the formation of the dimer interface in the crystal structure are promising candidates to alter the protein-protein interaction, which could provide a new way to inhibit Tgt.

-	~~{{STRUCTURE_3hfy\| PDB=3hfy \| SCENE= }}~~	+	An integrative approach combining noncovalent mass spectrometry, enzyme kinetics and X-ray crystallography to decipher Tgt protein-protein and protein-RNA interaction.,Ritschel T, Atmanene C, Reuter K, Van Dorsselaer A, Sanglier-Cianferani S, Klebe G J Mol Biol. 2009 Nov 6;393(4):833-47. Epub 2009 Jul 21. PMID:19627989<ref>PMID:19627989</ref>

-	~~===Mutant~~ of ~~tRNA-guanine transglycosylase (K52M)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_19627989}}~~	+	==See Also==
-		+	*[[TRNA-guanine transglycosylase\|TRNA-guanine transglycosylase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~3hfy~~]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Zymomonas_mobilis Zymomonas mobilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:019627989<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Zymomonas mobilis]]		[[Category: Zymomonas mobilis]]
	[[Category: TRNA-guanine transglycosylase]]		[[Category: TRNA-guanine transglycosylase]]
-	[[Category: Klebe, G.]]	+	[[Category: Klebe, G]]
-	[[Category: Ritschel, T.]]	+	[[Category: Ritschel, T]]
	[[Category: Dimer interface]]		[[Category: Dimer interface]]
	[[Category: Glycosyltransferase]]		[[Category: Glycosyltransferase]]

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

2013-03-06T14:38:21Z

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

←Older revision

Revision as of 14:38, 6 March 2013

OCA at 14:38, 6 March 2013

2013-03-06T14:38:19Z

←Older revision		Revision as of 14:38, 6 March 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3hfy.png\|left\|200px]]		[[Image:3hfy.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3hfy", 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_3hfy\| PDB=3hfy \| SCENE= }}		{{STRUCTURE_3hfy\| PDB=3hfy \| SCENE= }}

	===Mutant of tRNA-guanine transglycosylase (K52M)===		===Mutant of tRNA-guanine transglycosylase (K52M)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19627989}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19627989 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19627989}}		{{ABSTRACT_PUBMED_19627989}}

	==About this Structure==		==About this Structure==
-	~~3HFY~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Zymomonas_mobilis Zymomonas mobilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA].	+	[[3hfy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Zymomonas_mobilis Zymomonas mobilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19627989~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019627989</ref><references group="xtra"/>
-	~~[[Category: Queuine tRNA-ribosyltransferase]]~~	+
	[[Category: Zymomonas mobilis]]		[[Category: Zymomonas mobilis]]
		+	[[Category: TRNA-guanine transglycosylase]]
	[[Category: Klebe, G.]]		[[Category: Klebe, G.]]
	[[Category: Ritschel, T.]]		[[Category: Ritschel, T.]]
Line 36:		Line 24:
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Trna processing]]		[[Category: Trna processing]]
-	[[Category: Zinc]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 28 09:20:41 2009''

OCA at 07:20, 28 October 2009

2009-10-28T07:20:42Z

←Older revision		Revision as of 07:20, 28 October 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3hfy.~~jpg~~\|left\|200px]]	+	[[Image:3hfy.png\|left\|200px]]

	<!--		<!--
Line 38:		Line 38:
	[[Category: Zinc]]		[[Category: Zinc]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Aug 19 12~~:52:26 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 28 09:20:41 2009''

OCA at 09:52, 19 August 2009

2009-08-19T09:52:32Z

←Older revision		Revision as of 09:52, 19 August 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3hfy.jpg\|left\|200px]]

-	The ~~entry 3hfy~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3hfy", 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_3hfy\| PDB=3hfy \| SCENE= }}

-	~~Authors: Ritschel, T., Klebe, G.~~	+	===Mutant of tRNA-guanine transglycosylase (K52M)===

-	Description: Mutant of tRNA-guanine transglycosylase (K52M)

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jun 10 17~~:58:56 2009''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19627989}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19627989 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19627989}}
		+
		+	==About this Structure==
		+	3HFY is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Zymomonas_mobilis Zymomonas mobilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HFY OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19627989</ref><references group="xtra"/>
		+	[[Category: Queuine tRNA-ribosyltransferase]]
		+	[[Category: Zymomonas mobilis]]
		+	[[Category: Klebe, G.]]
		+	[[Category: Ritschel, T.]]
		+	[[Category: Dimer interface]]
		+	[[Category: Glycosyltransferase]]
		+	[[Category: Metal-binding]]
		+	[[Category: Mutation]]
		+	[[Category: Queuosine biosynthesis]]
		+	[[Category: Tgt]]
		+	[[Category: Transferase]]
		+	[[Category: Trna processing]]
		+	[[Category: Zinc]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 19 12:52:26 2009''