5zf1 - Revision history

OCA at 10:27, 27 March 2024

OCA — Wed, 27 Mar 2024 10:27:43 GMT

←Older revision		Revision as of 10:27, 27 March 2024
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	<StructureSection load='5zf1' size='340' side='right'caption='[[5zf1]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='5zf1' size='340' side='right'caption='[[5zf1]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zf1]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bommo Bommo~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZF1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZF1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zf1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bombyx_mori Bombyx mori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZF1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZF1 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=SO4:SULFATE+ION'>SO4</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]] 1.75Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~LOC101741628 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=7091 BOMMO])~~</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=SO4:SULFATE+ION'>SO4</scene></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=5zf1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zf1 OCA], [~~http~~://pdbe.org/5zf1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zf1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zf1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zf1 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=5zf1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zf1 OCA], [https://pdbe.org/5zf1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zf1 RCSB], [https://www.ebi.ac.uk/pdbsum/5zf1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zf1 ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The enzyme 5,10-methylenetetrahydrofolate dehydrogenase (MTHFD) is essential for the production of certain amino acids (glycine, serine, and methionine) and nucleic acids (thymidylate and purine). Here, we identified a cDNA encoding this enzyme from the silkworm Bombyx mori. The recombinant B. mori MTHFD (bmMTHFD) expressed in Escherichia coli recognized 5,10-methylenetetrahydrofolate and 5,10-methenyltetrahydrofolate as substrate in the presence of NADP (+) as well as NAD (+). The bmMTHFD structure was determined at a resolution of 1.75 A by X-ray crystallography. Site-directed mutagenesis indicated that the amino acid residue Tyr49 contributed to its catalytic activity. Our findings provide insight into the mechanism underlying the activity of MTHFD from B. mori and potentially other insects and may therefore facilitate the development of inhibitors specific to MTHFD as insecticides.
-
-	Molecular structure of a 5,10-methylenetetrahydrofolate dehydrogenase from the silkworm Bombyx mori.,Haque MR, Higashiura A, Nakagawa A, Hirowatari A, Furuya S, Yamamoto K FEBS Open Bio. 2019 Feb 26;9(4):618-628. doi: 10.1002/2211-5463.12595., eCollection 2019 Apr. PMID:30984537<ref>PMID:30984537</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5zf1" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bommo~~]]	+	[[Category: Bombyx mori]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Haque, R]]	+	[[Category: Haque R]]
-	[[Category: Higashiura, A]]	+	[[Category: Higashiura A]]
-	[[Category: Nakagawa, A]]	+	[[Category: Nakagawa A]]
-	[[Category: Yamamoto, K]]	+	[[Category: Yamamoto K]]
-	~~[[Category: 10-methylenetetrahydrofolate dehydrogenase]]~~	+
-	~~[[Category: Lepidoptera]]~~	+
-	~~[[Category: Nadp+]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Serine~~]]	+

OCA at 09:03, 1 May 2019

OCA — Wed, 01 May 2019 09:03:47 GMT

←Older revision		Revision as of 09:03, 1 May 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5zf1 is ~~ON HOLD until Mar 02 2020~~	+	==Molecular structure of a novel 5,10-methylenetetrahydrofolate dehydrogenase from the silkworm, Bombyx mori==
		+	<StructureSection load='5zf1' size='340' side='right'caption='[[5zf1]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5zf1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bommo Bommo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZF1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZF1 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=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LOC101741628 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7091 BOMMO])</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=5zf1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zf1 OCA], [http://pdbe.org/5zf1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zf1 RCSB], [http://www.ebi.ac.uk/pdbsum/5zf1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zf1 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The enzyme 5,10-methylenetetrahydrofolate dehydrogenase (MTHFD) is essential for the production of certain amino acids (glycine, serine, and methionine) and nucleic acids (thymidylate and purine). Here, we identified a cDNA encoding this enzyme from the silkworm Bombyx mori. The recombinant B. mori MTHFD (bmMTHFD) expressed in Escherichia coli recognized 5,10-methylenetetrahydrofolate and 5,10-methenyltetrahydrofolate as substrate in the presence of NADP (+) as well as NAD (+). The bmMTHFD structure was determined at a resolution of 1.75 A by X-ray crystallography. Site-directed mutagenesis indicated that the amino acid residue Tyr49 contributed to its catalytic activity. Our findings provide insight into the mechanism underlying the activity of MTHFD from B. mori and potentially other insects and may therefore facilitate the development of inhibitors specific to MTHFD as insecticides.

-	~~Authors: Haque~~, R., ~~Higashiura~~, A., Nakagawa, A., ~~Yamamoto~~, K.	+	Molecular structure of a 5,10-methylenetetrahydrofolate dehydrogenase from the silkworm Bombyx mori.,Haque MR, Higashiura A, Nakagawa A, Hirowatari A, Furuya S, Yamamoto K FEBS Open Bio. 2019 Feb 26;9(4):618-628. doi: 10.1002/2211-5463.12595., eCollection 2019 Apr. PMID:30984537<ref>PMID:30984537</ref>

-	~~Description: Molecular structure~~ of ~~a novel 5,10-methylenetetrahydrofolate dehydrogenase from~~ the ~~silkworm, Bombyx mori~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Yamamoto, K]]~~	+	<div class="pdbe-citations 5zf1" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Nakagawa, A~~]]	+	== References ==
-	[[Category: ~~Higashiura, A~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bommo]]
		+	[[Category: Large Structures]]
	[[Category: Haque, R]]		[[Category: Haque, R]]
		+	[[Category: Higashiura, A]]
		+	[[Category: Nakagawa, A]]
		+	[[Category: Yamamoto, K]]
		+	[[Category: 10-methylenetetrahydrofolate dehydrogenase]]
		+	[[Category: Lepidoptera]]
		+	[[Category: Nadp+]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Serine]]

OCA at 04:28, 4 April 2018

OCA — Wed, 04 Apr 2018 04:28:59 GMT

←Older revision		Revision as of 04:28, 4 April 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5zf1 is ON HOLD	+	The entry 5zf1 is ON HOLD until Mar 02 2020

	Authors: Haque, R., Higashiura, A., Nakagawa, A., Yamamoto, K.		Authors: Haque, R., Higashiura, A., Nakagawa, A., Yamamoto, K.

OCA: Protected "5zf1" [edit=sysop:move=sysop]

OCA — Thu, 08 Mar 2018 03:40:11 GMT

Protected "5zf1" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:40, 8 March 2018

OCA: New page: '''Unreleased structure''' The entry 5zf1 is ON HOLD Authors: Haque, R., Higashiura, A., Nakagawa, A., Yamamoto, K. Description: Molecular structure of a novel 5,10-methylenetetrahydro...

OCA — Thu, 08 Mar 2018 03:40:10 GMT

New page: '''Unreleased structure''' The entry 5zf1 is ON HOLD Authors: Haque, R., Higashiura, A., Nakagawa, A., Yamamoto, K. Description: Molecular structure of a novel 5,10-methylenetetrahydro...

New page

'''Unreleased structure'''

The entry 5zf1 is ON HOLD

Authors: Haque, R., Higashiura, A., Nakagawa, A., Yamamoto, K.

Description: Molecular structure of a novel 5,10-methylenetetrahydrofolate dehydrogenase from the silkworm, Bombyx mori
[[Category: Unreleased Structures]]
[[Category: Yamamoto, K]]
[[Category: Nakagawa, A]]
[[Category: Higashiura, A]]
[[Category: Haque, R]]