5hil - Revision history

OCA at 07:38, 9 August 2023

2023-08-09T07:38:03Z

←Older revision		Revision as of 07:38, 9 August 2023
Line 3:		Line 3:
	<StructureSection load='5hil' size='340' side='right'caption='[[5hil]], [[Resolution\|resolution]] 2.47Å' scene=''>		<StructureSection load='5hil' size='340' side='right'caption='[[5hil]], [[Resolution\|resolution]] 2.47Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5hil]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Methanohalophilus_portucalensis_dsm_7471~~ Methanohalophilus portucalensis ~~dsm 7471~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HIL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5HIL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5hil]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanohalophilus_portucalensis_FDF-1 Methanohalophilus portucalensis FDF-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HIL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HIL FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=EDO:1~~,2~~-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SAR:SARCOSINE'>SAR</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]] 2.471Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5hii\|5hii]], [[5hij\|5hij]], [[5hik\|5hik]], [[5him\|5him]], [[5gwx\|5gwx]], [[5h02\|5h02]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SAR:SARCOSINE'>SAR</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene:]]</b></td><td class~~=~~"sblockDat">gsmt ([http~~:~~//www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=523843 Methanohalophilus portucalensis DSM 7471])</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=5hil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hil OCA], [https://pdbe.org/5hil PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5hil RCSB], [https://www.ebi.ac.uk/pdbsum/5hil PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5hil 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/Glycine/sarcosine_N-methyltransferase Glycine/sarcosine N-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.156 2.1.1.156] </~~span~~></td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5hil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hil OCA], [~~http~~://pdbe.org/5hil PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5hil RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5hil PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5hil ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/F6KV61_9EURY F6KV61_9EURY]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Glycine/sarcosine N-methyltransferase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Methanohalophilus portucalensis ~~dsm 7471~~]]	+	[[Category: Methanohalophilus portucalensis FDF-1]]
-	[[Category: Chan~~, N L~~]]	+	[[Category: Chan NL]]
-	[[Category: Lai~~, M C~~]]	+	[[Category: Lai MC]]
-	[[Category: Lai~~, S J~~]]	+	[[Category: Lai SJ]]
-	[[Category: Lee~~, Y R~~]]	+	[[Category: Lee YR]]
-	[[Category: Lin~~, T S~~]]	+	[[Category: Lin TS]]
-	[[Category: Liu~~, M S]]~~	+	[[Category: Liu MS]]
-	~~[[Category: Betaine-mediated feedback inhibition]]~~	+
-	~~[[Category: Class i]]~~	+
-	~~[[Category: Monomethylation of glycine and sarcosine]]~~	+
-	~~[[Category: Rate-limiting enzyme in betaine biosynthesis]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 08:16, 27 May 2020

2020-05-27T08:16:51Z

←Older revision		Revision as of 08:16, 27 May 2020
Line 1:		Line 1:

	==Crystal structure of glycine sarcosine N-methyltransferase from Methanohalophilus portucalensis in complex with S-adenosylhomocysteine and sarcosine==		==Crystal structure of glycine sarcosine N-methyltransferase from Methanohalophilus portucalensis in complex with S-adenosylhomocysteine and sarcosine==
-	<StructureSection load='5hil' size='340' side='right' caption='[[5hil]], [[Resolution\|resolution]] 2.47Å' scene=''>	+	<StructureSection load='5hil' size='340' side='right'caption='[[5hil]], [[Resolution\|resolution]] 2.47Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5hil]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HIL OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5HIL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5hil]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanohalophilus_portucalensis_dsm_7471 Methanohalophilus portucalensis dsm 7471]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HIL OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5HIL FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SAR:SARCOSINE'>SAR</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SAR:SARCOSINE'>SAR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hii\|5hii]], [[5hij\|5hij]], [[5hik\|5hik]], [[5him\|5him]], [[5gwx\|5gwx]], [[5h02\|5h02]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hii\|5hii]], [[5hij\|5hij]], [[5hik\|5hik]], [[5him\|5him]], [[5gwx\|5gwx]], [[5h02\|5h02]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gsmt ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=523843 Methanohalophilus portucalensis DSM 7471])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glycine/sarcosine_N-methyltransferase Glycine/sarcosine N-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.156 2.1.1.156] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glycine/sarcosine_N-methyltransferase Glycine/sarcosine N-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.156 2.1.1.156] </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=5hil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hil OCA], [http://pdbe.org/5hil PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hil RCSB], [http://www.ebi.ac.uk/pdbsum/5hil PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hil ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5hil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hil OCA], [http://pdbe.org/5hil PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hil RCSB], [http://www.ebi.ac.uk/pdbsum/5hil PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hil ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 23:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Glycine/sarcosine N-methyltransferase]]		[[Category: Glycine/sarcosine N-methyltransferase]]
		+	[[Category: Large Structures]]
		+	[[Category: Methanohalophilus portucalensis dsm 7471]]
	[[Category: Chan, N L]]		[[Category: Chan, N L]]
	[[Category: Lai, M C]]		[[Category: Lai, M C]]

OCA at 07:48, 18 January 2017

2017-01-18T07:48:07Z

←Older revision		Revision as of 07:48, 18 January 2017
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=5hil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hil OCA], [http://pdbe.org/5hil PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hil RCSB], [http://www.ebi.ac.uk/pdbsum/5hil PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hil 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=5hil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hil OCA], [http://pdbe.org/5hil PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hil RCSB], [http://www.ebi.ac.uk/pdbsum/5hil PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hil ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Methyltransferases play crucial roles in many cellular processes, and various regulatory mechanisms have evolved to control their activities. For methyltransferases involved in biosynthetic pathways, regulation via feedback inhibition is a commonly employed strategy to prevent excessive accumulation of the pathways' end products. To date, no biosynthetic methyltransferases have been characterized by X-ray crystallography in complex with their corresponding end product. Here, we report the crystal structures of the glycine sarcosine N-methyltransferase from the halophilic archaeon Methanohalophilus portucalensis (MpGSMT), which represents the first structural elucidation of the GSMT methyltransferase family. As the first enzyme in the biosynthetic pathway of the osmoprotectant betaine, MpGSMT catalyzes N-methylation of glycine and sarcosine, and its activity is feedback-inhibited by the end product betaine. A structural analysis revealed that, despite the simultaneous presence of both substrate (sarcosine) and cofactor (S-adenosyl-L-homocysteine; SAH), the enzyme was likely crystallized in an inactive conformation, as additional structural changes are required to complete the active site assembly. Consistent with this interpretation, the bound SAH can be replaced by the methyl donor S-adenosyl-L-methionine without triggering the methylation reaction. Furthermore, the observed conformational state was found to harbor a betaine-binding site, suggesting that betaine may inhibit MpGSMT activity by trapping the enzyme in an inactive form. This work implicates a structural basis by which feedback inhibition of biosynthetic methyltransferases may be achieved.
		+
		+	Structural Analysis of Glycine Sarcosine N-methyltransferase from Methanohalophilus portucalensis Reveals Mechanistic Insights into the Regulation of Methyltransferase Activity.,Lee YR, Lin TS, Lai SJ, Liu MS, Lai MC, Chan NL Sci Rep. 2016 Dec 9;6:38071. doi: 10.1038/srep38071. PMID:27934872<ref>PMID:27934872</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5hil" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 10:54, 10 December 2016

2016-12-10T10:54:12Z

←Older revision		Revision as of 10:54, 10 December 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5hil ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of glycine sarcosine N-methyltransferase from Methanohalophilus portucalensis in complex with S-adenosylhomocysteine and sarcosine==
-		+	<StructureSection load='5hil' size='340' side='right' caption='[[5hil]], [[Resolution\|resolution]] 2.47Å' scene=''>
-	~~Authors~~: ~~Lee, Y~~.R.~~, Lin, T~~.S., ~~Lai~~, S.J., ~~Liu~~, M.S., ~~Lai~~, M.C., ~~Chan~~, N.L.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5hil]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HIL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HIL FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of glycine~~ sarcosine N-methyltransferase ~~from Methanohalophilus portucalensis in complex with S-adenosylhomocysteine and sarcosine~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SAR:SARCOSINE'>SAR</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hii\|5hii]], [[5hij\|5hij]], [[5hik\|5hik]], [[5him\|5him]], [[5gwx\|5gwx]], [[5h02\|5h02]]</td></tr>
-	[[Category: Lee, Y.R]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glycine/sarcosine_N-methyltransferase Glycine/sarcosine N-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.156 2.1.1.156] </span></td></tr>
-	[[Category: ~~Lai~~, ~~M.C~~]]	+	<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=5hil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hil OCA], [http://pdbe.org/5hil PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hil RCSB], [http://www.ebi.ac.uk/pdbsum/5hil PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hil ProSAT]</span></td></tr>
-	[[Category: Liu, M.S]]	+	</table>
-	[[Category: ~~Lai, S.J~~]]	+	__TOC__
-	[[Category: ~~Chan, N.L~~]]	+	</StructureSection>
-	[[Category: ~~Lin, T.S~~]]	+	[[Category: Glycine/sarcosine N-methyltransferase]]
		+	[[Category: Chan, N L]]
		+	[[Category: Lai, M C]]
		+	[[Category: Lai, S J]]
		+	[[Category: Lee, Y R]]
		+	[[Category: Lin, T S]]
		+	[[Category: Liu, M S]]
		+	[[Category: Betaine-mediated feedback inhibition]]
		+	[[Category: Class i]]
		+	[[Category: Monomethylation of glycine and sarcosine]]
		+	[[Category: Rate-limiting enzyme in betaine biosynthesis]]
		+	[[Category: Transferase]]

OCA at 13:49, 3 February 2016

2016-02-03T13:49:13Z

←Older revision		Revision as of 13:49, 3 February 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5hil is ON HOLD	+	The entry 5hil is ON HOLD until Paper Publication

	Authors: Lee, Y.R., Lin, T.S., Lai, S.J., Liu, M.S., Lai, M.C., Chan, N.L.		Authors: Lee, Y.R., Lin, T.S., Lai, S.J., Liu, M.S., Lai, M.C., Chan, N.L.

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

2016-01-20T15:30:51Z

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

←Older revision

Revision as of 15:30, 20 January 2016

OCA: New page: '''Unreleased structure''' The entry 5hil is ON HOLD Authors: Lee, Y.R., Lin, T.S., Lai, S.J., Liu, M.S., Lai, M.C., Chan, N.L. Description: Crystal structure of glycine sarcosine N-me...

2016-01-20T15:30:50Z

New page: '''Unreleased structure''' The entry 5hil is ON HOLD Authors: Lee, Y.R., Lin, T.S., Lai, S.J., Liu, M.S., Lai, M.C., Chan, N.L. Description: Crystal structure of glycine sarcosine N-me...

New page

'''Unreleased structure'''

The entry 5hil is ON HOLD

Authors: Lee, Y.R., Lin, T.S., Lai, S.J., Liu, M.S., Lai, M.C., Chan, N.L.

Description: Crystal structure of glycine sarcosine N-methyltransferase from Methanohalophilus portucalensis in complex with S-adenosylhomocysteine and sarcosine
[[Category: Unreleased Structures]]
[[Category: Lee, Y.R]]
[[Category: Lai, M.C]]
[[Category: Liu, M.S]]
[[Category: Lai, S.J]]
[[Category: Chan, N.L]]
[[Category: Lin, T.S]]