4rc1 - Revision history

OCA at 17:47, 20 September 2023

2023-09-20T17:47:36Z

←Older revision		Revision as of 17:47, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4rc1]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii_DSM_2661 Methanocaldococcus jannaschii DSM 2661]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RC1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RC1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4rc1]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii_DSM_2661 Methanocaldococcus jannaschii DSM 2661]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RC1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RC1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 2.4Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [https://pdbe.org/4rc1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [https://www.ebi.ac.uk/pdbsum/4rc1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rc1 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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [https://pdbe.org/4rc1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [https://www.ebi.ac.uk/pdbsum/4rc1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rc1 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 06:49, 2 March 2023

2023-03-02T06:49:28Z

←Older revision		Revision as of 06:49, 2 March 2023
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	<StructureSection load='4rc1' size='340' side='right'caption='[[4rc1]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='4rc1' size='340' side='right'caption='[[4rc1]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rc1]] is a 9 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Metja Metja~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RC1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4RC1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rc1]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii_DSM_2661 Methanocaldococcus jannaschii DSM 2661]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RC1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RC1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MJ1099 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243232 METJA])~~</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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [https://pdbe.org/4rc1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [https://www.ebi.ac.uk/pdbsum/4rc1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rc1 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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [~~http~~://pdbe.org/4rc1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4rc1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4rc1 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/MFNB_METJA MFNB_METJA] Catalyzes the formation of 4-(hydroxymethyl)-2-furancarboxaldehyde phosphate (4-HFC-P) from two molecules of glyceraldehyde-3-P (GA-3-P).[HAMAP-Rule:MF_00681]<ref>PMID:24977328</ref> <ref>PMID:25905665</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Metja~~]]	+	[[Category: Methanocaldococcus jannaschii DSM 2661]]
-	[[Category: Bobik~~, T A~~]]	+	[[Category: Bobik TA]]
-	[[Category: Cascio, D]]	+	[[Category: Cascio D]]
-	[[Category: Morales~~, E J~~]]	+	[[Category: Morales EJ]]
-	[[Category: Rasche~~, M E~~]]	+	[[Category: Rasche ME]]
-	[[Category: Sawaya~~, M R~~]]	+	[[Category: Sawaya MR]]
-	[[Category: Yeates~~, T O]]~~	+	[[Category: Yeates TO]]
-	~~[[Category: Dihydromethanopterin reductase]]~~	+
-	~~[[Category: Flavin]]~~	+
-	~~[[Category: Methanopterin]]~~	+
-	~~[[Category: Protein cage]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 09:53, 1 May 2019

2019-05-01T09:53:34Z

←Older revision		Revision as of 09:53, 1 May 2019
Line 1:		Line 1:

	==Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP==		==Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP==
-	<StructureSection load='4rc1' size='340' side='right' caption='[[4rc1]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='4rc1' size='340' side='right'caption='[[4rc1]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rc1]] is a 9 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RC1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RC1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rc1]] is a 9 chain structure with sequence from [http://en.wikipedia.org/wiki/Metja Metja]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RC1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RC1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MJ1099 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243232 METJA])</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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [http://pdbe.org/4rc1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [http://www.ebi.ac.uk/pdbsum/4rc1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rc1 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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [http://pdbe.org/4rc1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [http://www.ebi.ac.uk/pdbsum/4rc1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rc1 ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Metja]]
	[[Category: Bobik, T A]]		[[Category: Bobik, T A]]
	[[Category: Cascio, D]]		[[Category: Cascio, D]]

OCA at 18:52, 11 August 2016

2016-08-11T18:52:19Z

←Older revision		Revision as of 18:52, 11 August 2016
Line 1:		Line 1:
		+
	==Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP==		==Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP==
	<StructureSection load='4rc1' size='340' side='right' caption='[[4rc1]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='4rc1' size='340' side='right' caption='[[4rc1]], [[Resolution\|resolution]] 2.40Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4rc1]] is a 9 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RC1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RC1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4rc1]] is a 9 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RC1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RC1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [http://www.ebi.ac.uk/pdbsum/4rc1 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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [http://pdbe.org/4rc1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [http://www.ebi.ac.uk/pdbsum/4rc1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rc1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 15:
	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 4rc1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:10, 7 January 2015

2015-01-07T11:10:06Z

←Older revision		Revision as of 11:10, 7 January 2015
Line 6:		Line 6:
	<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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [http://www.ebi.ac.uk/pdbsum/4rc1 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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [http://www.ebi.ac.uk/pdbsum/4rc1 PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Prior studies have indicated that MJ1099 from Methanocaldococcus jannaschii has roles in the biosynthesis of tetrahydromethanopterin and methanofuran, two key cofactors of one-carbon (C1) metabolism in diverse organisms including the methanogenic archaea. Here, the structure of MJ1099 has been solved to 1.7 A resolution using anomalous scattering methods. The results indicate that MJ1099 is a member of the TIM-barrel superfamily and that it is a homohexamer. Bioinformatic analyses identified a potential active site that is highly conserved among MJ1099 homologs and the key amino acids involved were identified. The results presented here should guide further studies of MJ1099 including mechanistic studies and possibly the development of inhibitors that target the methanogenic archaea in the digestive tracts of humans and that are a source of the greenhouse gas methane.
		+
		+	Structure of the methanofuran/methanopterin-biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii.,Bobik TA, Morales EJ, Shin A, Cascio D, Sawaya MR, Arbing M, Yeates TO, Rasche ME Acta Crystallogr F Struct Biol Commun. 2014 Nov;70(Pt 11):1472-9. doi:, 10.1107/S2053230X1402130X. Epub 2014 Oct 25. PMID:25372812<ref>PMID:25372812</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:58, 12 November 2014

2014-11-12T06:58:52Z

←Older revision		Revision as of 06:58, 12 November 2014
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP==
-		+	<StructureSection load='4rc1' size='340' side='right' caption='[[4rc1]], [[Resolution\|resolution]] 2.40Å' scene=''>
-	~~The entry~~ 4rc1 is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4rc1]] is a 9 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RC1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RC1 FirstGlance]. <br>
-	~~Authors~~: ~~Bobik~~, T.A., ~~Morales~~, E.J., Cascio, D., Sawaya, M.R., Yeates, T.O~~., Rasche, M.E.~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=4rc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rc1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rc1 RCSB], [http://www.ebi.ac.uk/pdbsum/4rc1 PDBsum]</span></td></tr>
-	~~Description~~: ~~Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP~~	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bobik, T A]]
		+	[[Category: Cascio, D]]
		+	[[Category: Morales, E J]]
		+	[[Category: Rasche, M E]]
		+	[[Category: Sawaya, M R]]
		+	[[Category: Yeates, T O]]
		+	[[Category: Dihydromethanopterin reductase]]
		+	[[Category: Flavin]]
		+	[[Category: Methanopterin]]
		+	[[Category: Protein cage]]
		+	[[Category: Unknown function]]

OCA at 06:30, 8 October 2014

2014-10-08T06:30:26Z

←Older revision		Revision as of 06:30, 8 October 2014
Line 3:		Line 3:
	The entry 4rc1 is ON HOLD until Paper Publication		The entry 4rc1 is ON HOLD until Paper Publication

-	Authors: Bobik, T.A., Morales,E.J., Cascio, D., Sawaya, M.R., Yeates, T.O., Rasche, M.E.	+	Authors: Bobik, T.A., Morales, E.J., Cascio, D., Sawaya, M.R., Yeates, T.O., Rasche, M.E.

	Description: Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP		Description: Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP

OCA at 23:08, 1 October 2014

2014-10-01T23:08:43Z

←Older revision		Revision as of 23:08, 1 October 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4rc1 is ON HOLD	+	The entry 4rc1 is ON HOLD until Paper Publication

	Authors: Bobik, T.A., Morales,E.J., Cascio, D., Sawaya, M.R., Yeates, T.O., Rasche, M.E.		Authors: Bobik, T.A., Morales,E.J., Cascio, D., Sawaya, M.R., Yeates, T.O., Rasche, M.E.

	Description: Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP		Description: Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP

OCA: Protected "4rc1" [edit=sysop:move=sysop]

2014-09-24T08:32:01Z

Protected "4rc1" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:32, 24 September 2014

OCA: New page: '''Unreleased structure''' The entry 4rc1 is ON HOLD Authors: Bobik, T.A., Morales,E.J., Cascio, D., Sawaya, M.R., Yeates, T.O., Rasche, M.E. Description: Structure of the methanofuran...

2014-09-24T08:31:59Z

New page: '''Unreleased structure''' The entry 4rc1 is ON HOLD Authors: Bobik, T.A., Morales,E.J., Cascio, D., Sawaya, M.R., Yeates, T.O., Rasche, M.E. Description: Structure of the methanofuran...

New page

'''Unreleased structure'''

The entry 4rc1 is ON HOLD

Authors: Bobik, T.A., Morales,E.J., Cascio, D., Sawaya, M.R., Yeates, T.O., Rasche, M.E.

Description: Structure of the methanofuran/methanopterin biosynthetic enzyme MJ1099 from Methanocaldococcus jannaschii with PRPP