5qp6 - Revision history

OCA at 10:09, 14 February 2024

OCA — Wed, 14 Feb 2024 10:09:41 GMT

←Older revision		Revision as of 10:09, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='5qp6' size='340' side='right'caption='[[5qp6]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='5qp6' size='340' side='right'caption='[[5qp6]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5qp6]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5QP6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5QP6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5qp6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5QP6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5QP6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=LJM:5-ethyl-N-[(4-fluorophenyl)methyl]-1,3-thiazole-2-carboxamide'>LJM</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]] 1.65Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCP2, NUDT20 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=LJM:5-ethyl-N-[(4-fluorophenyl)methyl]-1,3-thiazole-2-carboxamide'>LJM</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/5'-(N(7)-methylguanosine_5'-triphospho)-[mRNA]_hydrolase 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.62 3.6.1.62] </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=5qp6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5qp6 OCA], [https://pdbe.org/5qp6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5qp6 RCSB], [https://www.ebi.ac.uk/pdbsum/5qp6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5qp6 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=5qp6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5qp6 OCA], [~~http~~://pdbe.org/5qp6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5qp6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5qp6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5qp6 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/DCP2_HUMAN DCP2_HUMAN]] Decapping metalloenzyme that catalyzes the cleavage of the cap structure on mRNAs (PubMed:12417715, PubMed:12218187, PubMed:12923261, PubMed:21070968). Removes the 7-methyl guanine cap structure from mRNA molecules, yielding a 5'-phosphorylated mRNA fragment and 7m-GDP (PubMed:12486012, PubMed:12923261, PubMed:21070968). Necessary for the degradation of mRNAs, both in normal mRNA turnover and in nonsense-mediated mRNA decay (PubMed:14527413). Plays a role in replication-dependent histone mRNA degradation (PubMed:18172165). Has higher activity towards mRNAs that lack a poly(A) tail (PubMed:21070968). Has no activity towards a cap structure lacking an RNA moiety (PubMed:21070968). Blocks autophagy in nutrient-rich conditions by repressing the expression of ATG-related genes through degration of their transcripts (PubMed:26098573).<ref>PMID:12218187</ref> <ref>PMID:12417715</ref> <ref>PMID:12486012</ref> <ref>PMID:12923261</ref> <ref>PMID:14527413</ref> <ref>PMID:18172165</ref> <ref>PMID:21070968</ref> <ref>PMID:26098573</ref>	+	[https://www.uniprot.org/uniprot/DCP2_HUMAN DCP2_HUMAN] Decapping metalloenzyme that catalyzes the cleavage of the cap structure on mRNAs (PubMed:12417715, PubMed:12218187, PubMed:12923261, PubMed:21070968). Removes the 7-methyl guanine cap structure from mRNA molecules, yielding a 5'-phosphorylated mRNA fragment and 7m-GDP (PubMed:12486012, PubMed:12923261, PubMed:21070968). Necessary for the degradation of mRNAs, both in normal mRNA turnover and in nonsense-mediated mRNA decay (PubMed:14527413). Plays a role in replication-dependent histone mRNA degradation (PubMed:18172165). Has higher activity towards mRNAs that lack a poly(A) tail (PubMed:21070968). Has no activity towards a cap structure lacking an RNA moiety (PubMed:21070968). Blocks autophagy in nutrient-rich conditions by repressing the expression of ATG-related genes through degration of their transcripts (PubMed:26098573).<ref>PMID:12218187</ref> <ref>PMID:12417715</ref> <ref>PMID:12486012</ref> <ref>PMID:12923261</ref> <ref>PMID:14527413</ref> <ref>PMID:18172165</ref> <ref>PMID:21070968</ref> <ref>PMID:26098573</ref>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Arrowsmith~~, C H~~]]	+	[[Category: Arrowsmith CH]]
-	[[Category: Bountra, C]]	+	[[Category: Bountra C]]
-	[[Category: Brandao-Neto, J]]	+	[[Category: Brandao-Neto J]]
-	[[Category: Burgess-Brown, N]]	+	[[Category: Burgess-Brown N]]
-	[[Category: Collins~~, P M]]~~	+	[[Category: Collins PM]]
-	~~[[Category: Delft, F von~~]]	+	[[Category: Douangamath A]]
-	[[Category: Douangamath, A]]	+	[[Category: Huber K]]
-	[[Category: Huber, K]]	+	[[Category: Krojer T]]
-	[[Category: Krojer, T]]	+	[[Category: Nelson ER]]
-	[[Category: Nelson~~, E R~~]]	+	[[Category: Talon R]]
-	[[Category: Talon, R]]	+	[[Category: Velupillai S]]
-	[[Category: Velupillai, S]]	+	[[Category: Wang D]]
-	[[Category: Wang, D]]	+	[[Category: Von Delft F]]
-	[[Category: ~~Hydrolase]]~~	+
-	~~[[Category: Pandda]]~~	+
-	~~[[Category: Sgc - diamond i04-1 fragment screening]]~~	+
-	~~[[Category: Xchemexplorer~~]]	+

OCA at 16:37, 20 November 2019

OCA — Wed, 20 Nov 2019 16:37:02 GMT

←Older revision		Revision as of 16:37, 20 November 2019
Line 3:		Line 3:
	<StructureSection load='5qp6' size='340' side='right'caption='[[5qp6]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='5qp6' size='340' side='right'caption='[[5qp6]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5qp6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5QP6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5QP6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5qp6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5QP6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5QP6 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=LJM:5-ethyl-N-[(4-fluorophenyl)methyl]-1,3-thiazole-2-carboxamide'>LJM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=LJM:5-ethyl-N-[(4-fluorophenyl)methyl]-1,3-thiazole-2-carboxamide'>LJM</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCP2, NUDT20 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/5'-(N(7)-methylguanosine_5'-triphospho)-[mRNA]_hydrolase 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.62 3.6.1.62] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/5'-(N(7)-methylguanosine_5'-triphospho)-[mRNA]_hydrolase 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.62 3.6.1.62] </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=5qp6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5qp6 OCA], [http://pdbe.org/5qp6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5qp6 RCSB], [http://www.ebi.ac.uk/pdbsum/5qp6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5qp6 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=5qp6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5qp6 OCA], [http://pdbe.org/5qp6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5qp6 RCSB], [http://www.ebi.ac.uk/pdbsum/5qp6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5qp6 ProSAT]</span></td></tr>
Line 14:		Line 15:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Arrowsmith, C H]]		[[Category: Arrowsmith, C H]]

OCA at 11:13, 10 May 2019

OCA — Fri, 10 May 2019 11:13:30 GMT

←Older revision		Revision as of 11:13, 10 May 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5qp6 ~~is ON HOLD~~	+	==PanDDA analysis group deposition -- Crystal Structure of DCP2 (NUDT20) in complex with Z1662802141==
-		+	<StructureSection load='5qp6' size='340' side='right'caption='[[5qp6]], [[Resolution\|resolution]] 1.65Å' scene=''>
-	~~Authors~~: ~~Nelson, E~~.R.~~, Velupillai, S~~., ~~Talon~~, R., ~~Collins~~, P.M., ~~Krojer, T~~.~~, Wang, D~~., ~~Brandao~~-~~Neto~~, J., ~~Douangamath~~, A., ~~Burgess~~-~~Brown, N~~.~~, Arrowsmith, C~~.H., ~~Bountra~~, C., ~~Huber~~, K., ~~von Delft~~, F.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5qp6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5QP6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5QP6 FirstGlance]. <br>
-	~~Description~~: ~~PanDDA analysis group deposition~~ --~~Crystal Structure~~ of ~~DCP2~~ (~~NUDT20~~) ~~in complex with Z1662802141~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=LJM:5-ethyl-N-[(4-fluorophenyl)methyl]-1,3-thiazole-2-carboxamide'>LJM</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/5'-(N(7)-methylguanosine_5'-triphospho)-[mRNA]_hydrolase 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.62 3.6.1.62] </span></td></tr>
-	[[Category: ~~Huber~~, K]]	+	<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=5qp6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5qp6 OCA], [http://pdbe.org/5qp6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5qp6 RCSB], [http://www.ebi.ac.uk/pdbsum/5qp6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5qp6 ProSAT]</span></td></tr>
-	[[Category: ~~Nelson~~, ~~E.R~~]]	+	</table>
-	[[Category: ~~Arrowsmith~~, ~~C.H~~]]	+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DCP2_HUMAN DCP2_HUMAN]] Decapping metalloenzyme that catalyzes the cleavage of the cap structure on mRNAs (PubMed:12417715, PubMed:12218187, PubMed:12923261, PubMed:21070968). Removes the 7-methyl guanine cap structure from mRNA molecules, yielding a 5'-phosphorylated mRNA fragment and 7m-GDP (PubMed:12486012, PubMed:12923261, PubMed:21070968). Necessary for the degradation of mRNAs, both in normal mRNA turnover and in nonsense-mediated mRNA decay (PubMed:14527413). Plays a role in replication-dependent histone mRNA degradation (PubMed:18172165). Has higher activity towards mRNAs that lack a poly(A) tail (PubMed:21070968). Has no activity towards a cap structure lacking an RNA moiety (PubMed:21070968). Blocks autophagy in nutrient-rich conditions by repressing the expression of ATG-related genes through degration of their transcripts (PubMed:26098573).<ref>PMID:12218187</ref> <ref>PMID:12417715</ref> <ref>PMID:12486012</ref> <ref>PMID:12923261</ref> <ref>PMID:14527413</ref> <ref>PMID:18172165</ref> <ref>PMID:21070968</ref> <ref>PMID:26098573</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Arrowsmith, C H]]
		+	[[Category: Bountra, C]]
		+	[[Category: Brandao-Neto, J]]
	[[Category: Burgess-Brown, N]]		[[Category: Burgess-Brown, N]]
-	[[Category: ~~Brandao-Neto~~, J]]	+	[[Category: Collins, P M]]
-	[[Category: ~~Talon~~, ~~R]]~~	+	[[Category: Delft, F von]]
-	~~[[Category: Collins, P.M~~]]	+
	[[Category: Douangamath, A]]		[[Category: Douangamath, A]]
		+	[[Category: Huber, K]]
	[[Category: Krojer, T]]		[[Category: Krojer, T]]
		+	[[Category: Nelson, E R]]
		+	[[Category: Talon, R]]
	[[Category: Velupillai, S]]		[[Category: Velupillai, S]]
	[[Category: Wang, D]]		[[Category: Wang, D]]
-	[[Category: ~~Von Delft, F~~]]	+	[[Category: Hydrolase]]
-	[[Category: ~~Bountra, C~~]]	+	[[Category: Pandda]]
		+	[[Category: Sgc - diamond i04-1 fragment screening]]
		+	[[Category: Xchemexplorer]]

OCA at 05:16, 6 March 2019

OCA — Wed, 06 Mar 2019 05:16:38 GMT

←Older revision		Revision as of 05:16, 6 March 2019
Line 3:		Line 3:
	The entry 5qp6 is ON HOLD		The entry 5qp6 is ON HOLD

-	Authors: Nelson, E.R., Velupillai, S., Talon, R., Collins, P.M., Krojer, T., Wang, D., Brandao-Neto, J., Douangamath, A., Burgess-Brown, N., Arrowsmith, C.H., Bountra, C., Huber, K., Delft, F.V.	+	Authors: Nelson, E.R., Velupillai, S., Talon, R., Collins, P.M., Krojer, T., Wang, D., Brandao-Neto, J., Douangamath, A., Burgess-Brown, N., Arrowsmith, C.H., Bountra, C., Huber, K., von Delft, F.

	Description: PanDDA analysis group deposition --Crystal Structure of DCP2 (NUDT20) in complex with Z1662802141		Description: PanDDA analysis group deposition --Crystal Structure of DCP2 (NUDT20) in complex with Z1662802141
Line 13:		Line 13:
	[[Category: Brandao-Neto, J]]		[[Category: Brandao-Neto, J]]
	[[Category: Talon, R]]		[[Category: Talon, R]]
-	[[Category: Delft, F.V]]
	[[Category: Collins, P.M]]		[[Category: Collins, P.M]]
	[[Category: Douangamath, A]]		[[Category: Douangamath, A]]
Line 19:		Line 18:
	[[Category: Velupillai, S]]		[[Category: Velupillai, S]]
	[[Category: Wang, D]]		[[Category: Wang, D]]
		+	[[Category: Von Delft, F]]
	[[Category: Bountra, C]]		[[Category: Bountra, C]]

OCA: Protected "5qp6" [edit=sysop:move=sysop]

OCA — Wed, 27 Feb 2019 13:27:01 GMT

Protected "5qp6" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:27, 27 February 2019

OCA: New page: '''Unreleased structure''' The entry 5qp6 is ON HOLD Authors: Nelson, E.R., Velupillai, S., Talon, R., Collins, P.M., Krojer, T., Wang, D., Brandao-Neto, J., Douangamath, A., Burgess-Br...

OCA — Wed, 27 Feb 2019 13:26:59 GMT

New page: '''Unreleased structure''' The entry 5qp6 is ON HOLD Authors: Nelson, E.R., Velupillai, S., Talon, R., Collins, P.M., Krojer, T., Wang, D., Brandao-Neto, J., Douangamath, A., Burgess-Br...

New page

'''Unreleased structure'''

The entry 5qp6 is ON HOLD

Authors: Nelson, E.R., Velupillai, S., Talon, R., Collins, P.M., Krojer, T., Wang, D., Brandao-Neto, J., Douangamath, A., Burgess-Brown, N., Arrowsmith, C.H., Bountra, C., Huber, K., Delft, F.V.

Description: PanDDA analysis group deposition --Crystal Structure of DCP2 (NUDT20) in complex with Z1662802141
[[Category: Unreleased Structures]]
[[Category: Huber, K]]
[[Category: Nelson, E.R]]
[[Category: Arrowsmith, C.H]]
[[Category: Burgess-Brown, N]]
[[Category: Brandao-Neto, J]]
[[Category: Talon, R]]
[[Category: Delft, F.V]]
[[Category: Collins, P.M]]
[[Category: Douangamath, A]]
[[Category: Krojer, T]]
[[Category: Velupillai, S]]
[[Category: Wang, D]]
[[Category: Bountra, C]]