4pum - Revision history

OCA at 17:22, 20 September 2023

OCA — Wed, 20 Sep 2023 17:22:43 GMT

←Older revision		Revision as of 17:22, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4pum]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Zymomonas_mobilis_subsp._mobilis_ZM4_=_ATCC_31821 Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PUM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PUM FirstGlance]. <br>		<table><tr><td colspan='2'>[[4pum]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Zymomonas_mobilis_subsp._mobilis_ZM4_=_ATCC_31821 Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PUM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PUM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2WU:6-AMINO-2-(METHYLAMINO)-3,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE'>2WU</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <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]] 1.93Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2WU:6-AMINO-2-(METHYLAMINO)-3,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE'>2WU</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [https://pdbe.org/4pum PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [https://www.ebi.ac.uk/pdbsum/4pum PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4pum 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=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [https://pdbe.org/4pum PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [https://www.ebi.ac.uk/pdbsum/4pum PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4pum ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:32, 8 February 2023

OCA — Wed, 08 Feb 2023 07:32:03 GMT

←Older revision		Revision as of 07:32, 8 February 2023
Line 1:		Line 1:

	==tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(methylamino)-1H,7H,8H-imidazo[4,5-g]quinazolin-8-one==		==tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(methylamino)-1H,7H,8H-imidazo[4,5-g]quinazolin-8-one==
-	<StructureSection load='4pum' size='340' side='right' caption='[[4pum]], [[Resolution\|resolution]] 1.93Å' scene=''>	+	<StructureSection load='4pum' size='340' side='right'caption='[[4pum]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4pum]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Zymmo Zymmo~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PUM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4PUM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4pum]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Zymomonas_mobilis_subsp._mobilis_ZM4_=_ATCC_31821 Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PUM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PUM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2WU:6-AMINO-2-(METHYLAMINO)-3,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE'>2WU</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <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=2WU:6-AMINO-2-(METHYLAMINO)-3,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE'>2WU</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <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">[[4puj\|4puj]], [[4puk\|4puk]], [[4pul\|4pul]], [[4pun\|4pun]]</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=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [https://pdbe.org/4pum PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [https://www.ebi.ac.uk/pdbsum/4pum PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4pum ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tgt, ZMO0363 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=264203 ZYMMO])</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=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [~~http~~://pdbe.org/4pum PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4pum PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4pum 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]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4pum" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4pum" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[TRNA-guanine transglycosylase 3D structures\|TRNA-guanine transglycosylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Zymmo~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Heine, A~~]]	+	[[Category: Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821]]
-	[[Category: ~~Klebe, G~~]]	+	[[Category: Heine A]]
-	[[Category: ~~Neeb, M~~]]	+	[[Category: Klebe G]]
-	[[Category: ~~Guanine exchange enzyme]]~~	+	[[Category: Neeb M]]
-	~~[[Category: Preq1]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Transferase-transferase inhibitor complex]]~~	+
-	~~[[Category: Trna~~]]	+

OCA at 08:45, 22 November 2017

OCA — Wed, 22 Nov 2017 08:45:15 GMT

←Older revision		Revision as of 08:45, 22 November 2017
Line 3:		Line 3:
	<StructureSection load='4pum' size='340' side='right' caption='[[4pum]], [[Resolution\|resolution]] 1.93Å' scene=''>		<StructureSection load='4pum' size='340' side='right' caption='[[4pum]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4pum]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PUM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4pum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Zymmo Zymmo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PUM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2WU:6-AMINO-2-(METHYLAMINO)-3,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE'>2WU</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <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=2WU:6-AMINO-2-(METHYLAMINO)-3,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE'>2WU</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <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">[[4puj\|4puj]], [[4puk\|4puk]], [[4pul\|4pul]], [[4pun\|4pun]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4puj\|4puj]], [[4puk\|4puk]], [[4pul\|4pul]], [[4pun\|4pun]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tgt, ZMO0363 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=264203 ZYMMO])</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=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [http://pdbe.org/4pum PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [http://www.ebi.ac.uk/pdbsum/4pum PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4pum ProSAT]</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=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [http://pdbe.org/4pum PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [http://www.ebi.ac.uk/pdbsum/4pum PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4pum ProSAT]</span></td></tr>
Line 20:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 4pum" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4pum" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[TRNA-guanine transglycosylase\|TRNA-guanine transglycosylase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Zymmo]]
	[[Category: Heine, A]]		[[Category: Heine, A]]
	[[Category: Klebe, G]]		[[Category: Klebe, G]]

OCA at 22:55, 4 August 2016

OCA — Thu, 04 Aug 2016 22:55:54 GMT

←Older revision		Revision as of 22:55, 4 August 2016
Line 1:		Line 1:
		+
	==tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(methylamino)-1H,7H,8H-imidazo[4,5-g]quinazolin-8-one==		==tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(methylamino)-1H,7H,8H-imidazo[4,5-g]quinazolin-8-one==
	<StructureSection load='4pum' size='340' side='right' caption='[[4pum]], [[Resolution\|resolution]] 1.93Å' scene=''>		<StructureSection load='4pum' size='340' side='right' caption='[[4pum]], [[Resolution\|resolution]] 1.93Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4puj\|4puj]], [[4puk\|4puk]], [[4pul\|4pul]], [[4pun\|4pun]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4puj\|4puj]], [[4puk\|4puk]], [[4pul\|4pul]], [[4pun\|4pun]]</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=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [http://www.ebi.ac.uk/pdbsum/4pum 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=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [http://pdbe.org/4pum PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [http://www.ebi.ac.uk/pdbsum/4pum PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4pum ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 4pum" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[TRNA-guanine transglycosylase\|TRNA-guanine transglycosylase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:47, 25 December 2014

OCA — Thu, 25 Dec 2014 13:47:20 GMT

←Older revision		Revision as of 13:47, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4pum]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PUM FirstGlance]. <br>		<table><tr><td colspan='2'>[[4pum]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PUM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2WU:6-AMINO-2-(METHYLAMINO)-3,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE'>2WU</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2WU:6-AMINO-2-(METHYLAMINO)-3,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE'>2WU</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4puj\|4puj]], [[4puk\|4puk]], [[4pul\|4pul]], [[4pun\|4pun]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4puj\|4puj]], [[4puk\|4puk]], [[4pul\|4pul]], [[4pun\|4pun]]</td></tr>
-	<tr><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><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [http://www.ebi.ac.uk/pdbsum/4pum 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=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [http://www.ebi.ac.uk/pdbsum/4pum 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]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Heine, A.]]	+	[[Category: Heine, A]]
-	[[Category: Klebe, G.]]	+	[[Category: Klebe, G]]
-	[[Category: Neeb, M.]]	+	[[Category: Neeb, M]]
	[[Category: Guanine exchange enzyme]]		[[Category: Guanine exchange enzyme]]
	[[Category: Preq1]]		[[Category: Preq1]]

OCA at 10:22, 16 July 2014

OCA — Wed, 16 Jul 2014 10:22:28 GMT

←Older revision		Revision as of 10:22, 16 July 2014
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(methylamino)-1H,7H,8H-imidazo[4,5-g]quinazolin-8-one==
		+	<StructureSection load='4pum' size='340' side='right' caption='[[4pum]], [[Resolution\|resolution]] 1.93Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4pum]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PUM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2WU:6-AMINO-2-(METHYLAMINO)-3,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE'>2WU</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4puj\|4puj]], [[4puk\|4puk]], [[4pul\|4pul]], [[4pun\|4pun]]</td></tr>
		+	<tr><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><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4pum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pum OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4pum RCSB], [http://www.ebi.ac.uk/pdbsum/4pum PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Drug molecules should remain uncharged while traveling through the body and crossing membranes and should only adopt charged state upon protein binding, particularly if charge-assisted interactions can be established in deeply buried binding pockets. Such strategy requires careful pKa design and methods to elucidate whether and where protonation-state changes occur. We investigated the protonation inventory in a series of lin-benzoguanines binding to tRNA-guanine transglycosylase, showing pronounced buffer dependency during ITC measurements. Chemical modifications of the parent scaffold along with ITC measurements, pKa calculations, and site-directed mutagenesis allow elucidating the protonation site. The parent scaffold exhibits two guanidine-type portions, both likely candidates for proton uptake. Even mutually compensating effects resulting from proton release of the protein and simultaneous uptake by the ligand can be excluded. Two adjacent aspartates induce a strong pKa shift at the ligand site, resulting in protonation-state transition. Furthermore, an array of two parallel H-bonds avoiding secondary repulsive effects contributes to the high-affinity binding of the lin-benzoguanines.

-	~~The entry 4pum is ON HOLD until Paper Publication~~	+	Chasing Protons: How Isothermal Titration Calorimetry, Mutagenesis, and pKa Calculations Trace the Locus of Charge in Ligand Binding to a tRNA-Binding Enzyme.,Neeb M, Czodrowski P, Heine A, Barandun LJ, Hohn C, Diederich F, Klebe G J Med Chem. 2014 Jul 10;57(13):5554-65. doi: 10.1021/jm500401x. Epub 2014 Jun 23. PMID:24955548<ref>PMID:24955548</ref>

-	~~Authors: Neeb~~, M., Heine, A., Klebe, G.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~tRNA-~~Guanine ~~Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(methylamino)-1H,7H,8H-imidazo~~[~~4,5-g~~]~~quinazolin~~-~~8-one~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Heine, A.]]
		+	[[Category: Klebe, G.]]
		+	[[Category: Neeb, M.]]
		+	[[Category: Guanine exchange enzyme]]
		+	[[Category: Preq1]]
		+	[[Category: Transferase]]
		+	[[Category: Transferase-transferase inhibitor complex]]
		+	[[Category: Trna]]

OCA at 07:27, 23 April 2014

OCA — Wed, 23 Apr 2014 07:27:30 GMT

←Older revision		Revision as of 07:27, 23 April 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4pum is ON HOLD	+	The entry 4pum is ON HOLD until Paper Publication

	Authors: Neeb, M., Heine, A., Klebe, G.		Authors: Neeb, M., Heine, A., Klebe, G.

	Description: tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(methylamino)-1H,7H,8H-imidazo[4,5-g]quinazolin-8-one		Description: tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(methylamino)-1H,7H,8H-imidazo[4,5-g]quinazolin-8-one

OCA: Protected "4pum" [edit=sysop:move=sysop]

OCA — Wed, 19 Mar 2014 07:45:19 GMT

Protected "4pum" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:45, 19 March 2014

OCA: New page: '''Unreleased structure''' The entry 4pum is ON HOLD Authors: Neeb, M., Heine, A., Klebe, G. Description: tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(me...

OCA — Wed, 19 Mar 2014 07:45:17 GMT

New page: '''Unreleased structure''' The entry 4pum is ON HOLD Authors: Neeb, M., Heine, A., Klebe, G. Description: tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(me...

New page

'''Unreleased structure'''

The entry 4pum is ON HOLD

Authors: Neeb, M., Heine, A., Klebe, G.

Description: tRNA-Guanine Transglycosylase (TGT) Mutant D156N in Complex with 6-Amino-2-(methylamino)-1H,7H,8H-imidazo[4,5-g]quinazolin-8-one