6s83 - Revision history

OCA at 12:37, 24 January 2024

OCA — Wed, 24 Jan 2024 12:37:07 GMT

←Older revision		Revision as of 12:37, 24 January 2024
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	<StructureSection load='6s83' size='340' side='right'caption='[[6s83]], [[Resolution\|resolution]] 2.34Å' scene=''>		<StructureSection load='6s83' size='340' side='right'caption='[[6s83]], [[Resolution\|resolution]] 2.34Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6s83]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Pyrfu Pyrfu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6S83 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6S83 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6s83]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6S83 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6S83 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=MDN:METHYLENEDIPHOSPHONIC+ACID'>MDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</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]] 2.336Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6s81\|6s81]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=MDN:METHYLENEDIPHOSPHONIC+ACID'>MDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mat, PF1866 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=186497 PYRFU])</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=6s83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6s83 OCA], [https://pdbe.org/6s83 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6s83 RCSB], [https://www.ebi.ac.uk/pdbsum/6s83 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6s83 ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionine_adenosyltransferase Methionine adenosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.6 2.5.1.6] </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=6s83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6s83 OCA], [~~http~~://pdbe.org/6s83 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6s83 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6s83 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6s83 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/METK_PYRFU METK_PYRFU]] Catalyzes the formation of S-adenosylmethionine from methionine and ATP.	+	[https://www.uniprot.org/uniprot/METK_PYRFU METK_PYRFU] Catalyzes the formation of S-adenosylmethionine from methionine and ATP.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6s83" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6s83" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[S-adenosylmethionine synthetase 3D structures\|S-adenosylmethionine synthetase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Methionine adenosyltransferase]]~~	+	[[Category: Pyrococcus furiosus DSM 3638]]
-	~~[[Category: Pyrfu~~]]	+	[[Category: Degano M]]
-	[[Category: Degano, M]]	+	[[Category: Minici C]]
-	[[Category: Minici, C]]	+	[[Category: Porcelli M]]
-	[[Category: Porcelli, M]]	+
-	~~[[Category: Cofactor biosynthesis]]~~	+
-	~~[[Category: Cytoplasmic]]~~	+
-	~~[[Category: S-adenosyl methionine synthesis]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 10:27, 18 March 2020

OCA — Wed, 18 Mar 2020 10:27:12 GMT

←Older revision		Revision as of 10:27, 18 March 2020
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	<StructureSection load='6s83' size='340' side='right'caption='[[6s83]], [[Resolution\|resolution]] 2.34Å' scene=''>		<StructureSection load='6s83' size='340' side='right'caption='[[6s83]], [[Resolution\|resolution]] 2.34Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6s83]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6S83 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6S83 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6s83]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrfu Pyrfu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6S83 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6S83 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=MDN:METHYLENEDIPHOSPHONIC+ACID'>MDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=MDN:METHYLENEDIPHOSPHONIC+ACID'>MDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6s81\|6s81]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6s81\|6s81]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mat, PF1866 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=186497 PYRFU])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionine_adenosyltransferase Methionine adenosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.6 2.5.1.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionine_adenosyltransferase Methionine adenosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.6 2.5.1.6] </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=6s83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6s83 OCA], [http://pdbe.org/6s83 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6s83 RCSB], [http://www.ebi.ac.uk/pdbsum/6s83 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6s83 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=6s83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6s83 OCA], [http://pdbe.org/6s83 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6s83 RCSB], [http://www.ebi.ac.uk/pdbsum/6s83 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6s83 ProSAT]</span></td></tr>
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	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Methionine adenosyltransferase]]		[[Category: Methionine adenosyltransferase]]
		+	[[Category: Pyrfu]]
	[[Category: Degano, M]]		[[Category: Degano, M]]
	[[Category: Minici, C]]		[[Category: Minici, C]]

OCA at 08:09, 5 February 2020

OCA — Wed, 05 Feb 2020 08:09:05 GMT

←Older revision		Revision as of 08:09, 5 February 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6s83 is ~~ON HOLD~~	+	==Crystal structure of methionine adenosyltransferase from Pyrococcus furiosus in complex with AMPPCP, SAM, and PCP==
		+	<StructureSection load='6s83' size='340' side='right'caption='[[6s83]], [[Resolution\|resolution]] 2.34Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6s83]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6S83 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6S83 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=MDN:METHYLENEDIPHOSPHONIC+ACID'>MDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6s81\|6s81]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionine_adenosyltransferase Methionine adenosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.6 2.5.1.6] </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=6s83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6s83 OCA], [http://pdbe.org/6s83 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6s83 RCSB], [http://www.ebi.ac.uk/pdbsum/6s83 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6s83 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/METK_PYRFU METK_PYRFU]] Catalyzes the formation of S-adenosylmethionine from methionine and ATP.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Methionine adenosyltransferases catalyse the biosynthesis of S-adenosylmethionine, the primary methyl group donor in biochemical reactions, through the condensation of methionine and ATP. Here, we report the structural analysis of the Pyrococcus furiosus methionine adenosyltransferase (PfMAT) captured in the unliganded, substrate- and product-bound states. The conformational changes taking place during the enzymatic catalytic cycle are allosterically propagated by amino acid residues conserved in the archaeal orthologues to induce an asymmetric dimer structure. The distinct occupancy of the active sites within a PfMAT dimer is consistent with a half-site reactivity that is mediated by a product-induced negative cooperativity. The structures of intermediate states of PfMAT reported here suggest a distinct molecular mechanism for S-adenosylmethionine synthesis in Archaea, likely consequence of the evolutionary pressure to achieve protein stability under extreme conditions.

-	~~Authors: Degano, M~~., Minici, C., Porcelli, M.	+	Structures of catalytic cycle intermediates of the Pyrococcus furiosus methionine adenosyltransferase demonstrate negative cooperativity in the archaeal orthologues.,Minici C, Mosca L, Ilisso CP, Cacciapuoti G, Porcelli M, Degano M J Struct Biol. 2020 Jan 18:107462. doi: 10.1016/j.jsb.2020.107462. PMID:31962159<ref>PMID:31962159</ref>

-	~~Description: Crystal structure of methionine adenosyltransferase from Pyrococcus furiosus in complex with AMPPCP~~, ~~SAM, and PCP~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Minici, C~~]]	+	<div class="pdbe-citations 6s83" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Methionine adenosyltransferase]]
	[[Category: Degano, M]]		[[Category: Degano, M]]
		+	[[Category: Minici, C]]
	[[Category: Porcelli, M]]		[[Category: Porcelli, M]]
		+	[[Category: Cofactor biosynthesis]]
		+	[[Category: Cytoplasmic]]
		+	[[Category: S-adenosyl methionine synthesis]]
		+	[[Category: Transferase]]

OCA: Protected "6s83" [edit=sysop:move=sysop]

OCA — Wed, 17 Jul 2019 09:16:29 GMT

Protected "6s83" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:16, 17 July 2019

OCA: New page: '''Unreleased structure''' The entry 6s83 is ON HOLD Authors: Degano, M., Minici, C., Porcelli, M. Description: Crystal structure of methionine adenosyltransferase from Pyrococcus furi...

OCA — Wed, 17 Jul 2019 09:16:27 GMT

New page: '''Unreleased structure''' The entry 6s83 is ON HOLD Authors: Degano, M., Minici, C., Porcelli, M. Description: Crystal structure of methionine adenosyltransferase from Pyrococcus furi...

New page

'''Unreleased structure'''

The entry 6s83 is ON HOLD

Authors: Degano, M., Minici, C., Porcelli, M.

Description: Crystal structure of methionine adenosyltransferase from Pyrococcus furiosus in complex with AMPPCP, SAM, and PCP
[[Category: Unreleased Structures]]
[[Category: Minici, C]]
[[Category: Degano, M]]
[[Category: Porcelli, M]]