5jfq - Revision history

OCA at 11:02, 6 September 2023

OCA — Wed, 06 Sep 2023 11:02:26 GMT

←Older revision		Revision as of 11:02, 6 September 2023
Line 1:		Line 1:

	==Geranylgeranyl Pyrophosphate Synthetase from archaeon Geoglobus acetivorans==		==Geranylgeranyl Pyrophosphate Synthetase from archaeon Geoglobus acetivorans==
-	<StructureSection load='5jfq' size='340' side='right' caption='[[5jfq]], [[Resolution\|resolution]] 2.51Å' scene=''>	+	<StructureSection load='5jfq' size='340' side='right'caption='[[5jfq]], [[Resolution\|resolution]] 2.51Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jfq]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Dsm_21716 Dsm 21716~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JFQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5JFQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jfq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Geoglobus_acetivorans Geoglobus acetivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JFQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JFQ FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~GACE_1337 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=565033 DSM 21716])~~</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]] 2.51Å</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=5jfq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jfq OCA], [~~http~~://pdbe.org/5jfq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5jfq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5jfq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5jfq 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=5jfq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jfq OCA], [https://pdbe.org/5jfq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jfq RCSB], [https://www.ebi.ac.uk/pdbsum/5jfq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jfq ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/GGPPS_GEOAI GGPPS_GEOAI] Catalyzes the addition of 3 molecules of isopentenyl diphosphate (IPP) onto dimethylallyl diphosphate (DMAPP) to form geranylgeranyl pyrophosphate (GGPP). Catalyzes the synthesis of geranylgeranyl pyrophosphate as a major product and of farnesyl pyrophosphate in smaller amounts.<ref>PMID:30062607</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Dsm 21716~~]]	+	[[Category: Geoglobus acetivorans]]
-	[[Category: Boyko~~, K M~~]]	+	[[Category: Large Structures]]
-	[[Category: Mardanov~~, A V~~]]	+	[[Category: Boyko KM]]
-	[[Category: Nikolaeva~~, A Y~~]]	+	[[Category: Mardanov AV]]
-	[[Category: Petrova, T]]	+	[[Category: Nikolaeva AY]]
-	[[Category: Popov~~, V O~~]]	+	[[Category: Petrova T]]
-	[[Category: Rakitin~~, A L~~]]	+	[[Category: Popov VO]]
-	[[Category: Ravin~~, N V~~]]	+	[[Category: Rakitin AL]]
-	[[Category: Stekhanova~~, T N]]~~	+	[[Category: Ravin NV]]
-	~~[[Category: Archaeon]]~~	+	[[Category: Stekhanova TN]]
-	~~[[Category: Geranylgeranyl pyrophosphate synthetase]]~~	+
-	~~[[Category: Hyperthermophilic]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 07:03, 12 December 2018

OCA — Wed, 12 Dec 2018 07:03:47 GMT

←Older revision		Revision as of 07:03, 12 December 2018
Line 3:		Line 3:
	<StructureSection load='5jfq' size='340' side='right' caption='[[5jfq]], [[Resolution\|resolution]] 2.51Å' scene=''>		<StructureSection load='5jfq' size='340' side='right' caption='[[5jfq]], [[Resolution\|resolution]] 2.51Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jfq]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JFQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JFQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jfq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_21716 Dsm 21716]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JFQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JFQ FirstGlance]. <br>
-	</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=5jfq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jfq OCA], [http://pdbe.org/5jfq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jfq RCSB], [http://www.ebi.ac.uk/pdbsum/5jfq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jfq ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GACE_1337 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=565033 DSM 21716])</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=5jfq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jfq OCA], [http://pdbe.org/5jfq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jfq RCSB], [http://www.ebi.ac.uk/pdbsum/5jfq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jfq ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A novel type 1 geranylgeranyl pyrophosphate synthase GACE1337 has been identified within the genome of a newly identified hyperthermophilic archaeon Geoglobus acetivorans. The enzyme has been cloned and over-expressed in Escherichia coli. The recombinant enzyme has been biochemically and structurally characterized. It is able to catalyze the synthesis of geranylgeranyl pyrophosphate as a major product and of farnesyl pyrophosphate in smaller amounts, as measured by gas chromatography-mass spectrometry at an elevated temperature of 60 degrees C. Its ability to produce two products is consistent with the fact that GACE1337 is the only short-chain isoprenyl diphosphate synthase in G. acetivorans. Attempts to crystallize the enzyme were successful only at 37 degrees C. The three-dimensional structure of GACE1337 was determined by X-ray diffraction to 2.5 A resolution. A comparison of its structure with those of related enzymes revealed that the Geoglobus enzyme has the features of both type I and type III geranylgeranyl pyrophosphate synthases, which allow it to regulate the product length. The active enzyme is a dimer and has three aromatic amino acids, two Phe, and a Tyr, located in the hydrophobic cleft between the two subunits. It is proposed that these bulky residues play a major role in the synthetic reaction by controlling the product elongation.
		+
		+	Structural characterization of geranylgeranyl pyrophosphate synthase GACE1337 from the hyperthermophilic archaeon Geoglobus acetivorans.,Petrova TE, Boyko KM, Nikolaeva AY, Stekhanova TN, Gruzdev EV, Mardanov AV, Stroilov VS, Littlechild JA, Popov VO, Bezsudnova EY Extremophiles. 2018 Nov;22(6):877-888. doi: 10.1007/s00792-018-1044-5. Epub 2018 , Jul 30. PMID:30062607<ref>PMID:30062607</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5jfq" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Dsm 21716]]
	[[Category: Boyko, K M]]		[[Category: Boyko, K M]]
	[[Category: Mardanov, A V]]		[[Category: Mardanov, A V]]

OCA at 13:43, 24 May 2017

OCA — Wed, 24 May 2017 13:43:13 GMT

←Older revision		Revision as of 13:43, 24 May 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5jfq ~~is ON HOLD until Apr 19 2018~~	+	==Geranylgeranyl Pyrophosphate Synthetase from archaeon Geoglobus acetivorans==
-		+	<StructureSection load='5jfq' size='340' side='right' caption='[[5jfq]], [[Resolution\|resolution]] 2.51Å' scene=''>
-	~~Authors~~: ~~Petrova, T~~.~~, Boyko, K~~.M.~~, Nikolaeva, A~~.Y.~~, Stekhanova, T~~.N., ~~Mardanov, A~~.V., ~~Rakitin~~, A.L., ~~Ravin, N~~.V., ~~Popov, V~~.O.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5jfq]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JFQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JFQ FirstGlance]. <br>
-	~~Description: Geranylgeranyl Pyrophosphate Synthetase from archaeon Geoglobus acetivorans~~	+	</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=5jfq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jfq OCA], [http://pdbe.org/5jfq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jfq RCSB], [http://www.ebi.ac.uk/pdbsum/5jfq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jfq ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
-	[[Category: Mardanov, A.V]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Boyko, K M]]
		+	[[Category: Mardanov, A V]]
		+	[[Category: Nikolaeva, A Y]]
	[[Category: Petrova, T]]		[[Category: Petrova, T]]
-	[[Category: ~~Ravin~~, N.V]]	+	[[Category: Popov, V O]]
-	[[Category: ~~Boyko~~, ~~K.M~~]]	+	[[Category: Rakitin, A L]]
-	[[Category: ~~Popov~~, V.O]]	+	[[Category: Ravin, N V]]
-	[[Category: Stekhanova, T.N]]	+	[[Category: Stekhanova, T N]]
-	[[Category: ~~Nikolaeva, A.Y~~]]	+	[[Category: Archaeon]]
-	[[Category: ~~Rakitin, A.L~~]]	+	[[Category: Geranylgeranyl pyrophosphate synthetase]]
		+	[[Category: Hyperthermophilic]]
		+	[[Category: Oxidoreductase]]

OCA at 09:52, 9 March 2017

OCA — Thu, 09 Mar 2017 09:52:19 GMT

←Older revision		Revision as of 09:52, 9 March 2017
Line 8:		Line 8:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Mardanov, A.V]]		[[Category: Mardanov, A.V]]
-	[[Category: Boyko, K.M]]
-	[[Category: Popov, V.O]]
-	[[Category: Nikolaeva, A.Y]]
	[[Category: Petrova, T]]		[[Category: Petrova, T]]
	[[Category: Ravin, N.V]]		[[Category: Ravin, N.V]]
		+	[[Category: Boyko, K.M]]
		+	[[Category: Popov, V.O]]
	[[Category: Stekhanova, T.N]]		[[Category: Stekhanova, T.N]]
		+	[[Category: Nikolaeva, A.Y]]
	[[Category: Rakitin, A.L]]		[[Category: Rakitin, A.L]]

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

OCA — Wed, 11 May 2016 01:58:47 GMT

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

←Older revision

Revision as of 01:58, 11 May 2016

OCA: New page: '''Unreleased structure''' The entry 5jfq is ON HOLD until Apr 19 2018 Authors: Petrova, T., Boyko, K.M., Nikolaeva, A.Y., Stekhanova, T.N., Mardanov, A.V., Rakitin, A.L., Ravin, N.V., ...

OCA — Wed, 11 May 2016 01:58:46 GMT

New page: '''Unreleased structure''' The entry 5jfq is ON HOLD until Apr 19 2018 Authors: Petrova, T., Boyko, K.M., Nikolaeva, A.Y., Stekhanova, T.N., Mardanov, A.V., Rakitin, A.L., Ravin, N.V., ...

New page

'''Unreleased structure'''

The entry 5jfq is ON HOLD until Apr 19 2018

Authors: Petrova, T., Boyko, K.M., Nikolaeva, A.Y., Stekhanova, T.N., Mardanov, A.V., Rakitin, A.L., Ravin, N.V., Popov, V.O.

Description: Geranylgeranyl Pyrophosphate Synthetase from archaeon Geoglobus acetivorans
[[Category: Unreleased Structures]]
[[Category: Mardanov, A.V]]
[[Category: Boyko, K.M]]
[[Category: Popov, V.O]]
[[Category: Nikolaeva, A.Y]]
[[Category: Petrova, T]]
[[Category: Ravin, N.V]]
[[Category: Stekhanova, T.N]]
[[Category: Rakitin, A.L]]