This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


2q9z

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (11:27, 30 August 2023) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2q9z.gif|left|200px]]
 
-
{{Structure
+
==Trichodiene synthase: Complex with inorganic pyrophosphate resulting from the reaction with 2-fluorofarnesyl diphosphate==
-
|PDB= 2q9z |SIZE=350|CAPTION= <scene name='initialview01'>2q9z</scene>, resolution 2.95&Aring;
+
<StructureSection load='2q9z' size='340' side='right'caption='[[2q9z]], [[Resolution|resolution]] 2.95&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene>
+
<table><tr><td colspan='2'>[[2q9z]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Fusarium_sporotrichioides Fusarium sporotrichioides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Q9Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Q9Z FirstGlance]. <br>
-
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Trichodiene_synthase Trichodiene synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.3.6 4.2.3.6] </span>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.95&#8491;</td></tr>
-
|GENE= TRI5, TOX 5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5514 Fusarium sporotrichioides])
+
<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=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>
-
|DOMAIN=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2q9z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2q9z OCA], [https://pdbe.org/2q9z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2q9z RCSB], [https://www.ebi.ac.uk/pdbsum/2q9z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2q9z ProSAT]</span></td></tr>
-
|RELATEDENTRY=[[1jfa|1JFA]], [[1jfg|1JFG]]
+
</table>
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2q9z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2q9z OCA], [http://www.ebi.ac.uk/pdbsum/2q9z PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2q9z RCSB]</span>
+
== Function ==
-
}}
+
[https://www.uniprot.org/uniprot/TRI5_FUSSP TRI5_FUSSP] TS is a member of the terpene cyclase group of enzymes. It catalyzes the isomerization and cyclization of farnesyl pyro-phosphate to form trichodiene, the first cyclic intermediate in the biosynthetic pathway for trichothecenes. It serves to branch trichothecene biosynthesis from the isoprenoid pathway.
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/q9/2q9z_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2q9z ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Trichodiene synthase is a terpenoid cyclase that catalyzes the cyclization of farnesyl diphosphate (FPP) to form the bicyclic sesquiterpene hydrocarbon trichodiene (89%), at least five sesquiterpene side products (11%), and inorganic pyrophosphate (PP(i)). Incubation of trichodiene synthase with 2-fluorofarnesyl diphosphate or 4-methylfarnesyl diphosphate similarly yields sesquiterpene mixtures despite the electronic effects or steric bulk introduced by substrate derivatization. The versatility of the enzyme is also demonstrated in the 2.85A resolution X-ray crystal structure of the complex with Mg(2+) (3)-PP(i) and the benzyl triethylammonium cation, which is a bulkier mimic of the bisabolyl carbocation intermediate in catalysis. Taken together, these findings show that the active site of trichodiene synthase is sufficiently flexible to accommodate bulkier and electronically-diverse substrates and intermediates, which could indicate additional potential for the biosynthetic utility of this terpenoid cyclase.
-
'''Trichodiene synthase: Complex with inorganic pyrophosphate resulting from the reaction with 2-fluorofarnesyl diphosphate'''
+
Exploring biosynthetic diversity with trichodiene synthase.,Vedula LS, Zhao Y, Coates RM, Koyama T, Cane DE, Christianson DW Arch Biochem Biophys. 2007 Oct 15;466(2):260-6. Epub 2007 Jun 28. PMID:17678871<ref>PMID:17678871</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 2q9z" style="background-color:#fffaf0;"></div>
-
==Overview==
+
==See Also==
-
Trichodiene synthase is a terpenoid cyclase that catalyzes the cyclization of farnesyl diphosphate (FPP) to form the bicyclic sesquiterpene hydrocarbon trichodiene (89%), at least five sesquiterpene side products (11%), and inorganic pyrophosphate (PP(i)). Incubation of trichodiene synthase with 2-fluorofarnesyl diphosphate or 4-methylfarnesyl diphosphate similarly yields sesquiterpene mixtures despite the electronic effects or steric bulk introduced by substrate derivatization. The versatility of the enzyme is also demonstrated in the 2.85A resolution X-ray crystal structure of the complex with Mg(2+) (3)-PP(i) and the benzyl triethylammonium cation, which is a bulkier mimic of the bisabolyl carbocation intermediate in catalysis. Taken together, these findings show that the active site of trichodiene synthase is sufficiently flexible to accommodate bulkier and electronically-diverse substrates and intermediates, which could indicate additional potential for the biosynthetic utility of this terpenoid cyclase.
+
*[[Trichodiene synthase|Trichodiene synthase]]
-
 
+
== References ==
-
==About this Structure==
+
<references/>
-
2Q9Z is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Fusarium_sporotrichioides Fusarium sporotrichioides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Q9Z OCA].
+
__TOC__
-
 
+
</StructureSection>
-
==Reference==
+
-
Exploring biosynthetic diversity with trichodiene synthase., Vedula LS, Zhao Y, Coates RM, Koyama T, Cane DE, Christianson DW, Arch Biochem Biophys. 2007 Oct 15;466(2):260-6. Epub 2007 Jun 28. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17678871 17678871]
+
[[Category: Fusarium sporotrichioides]]
[[Category: Fusarium sporotrichioides]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Trichodiene synthase]]
+
[[Category: Cane DE]]
-
[[Category: Cane, D E.]]
+
[[Category: Christianson DW]]
-
[[Category: Christianson, D W.]]
+
[[Category: Coates RM]]
-
[[Category: Coates, R M.]]
+
[[Category: Koyama T]]
-
[[Category: Koyama, T.]]
+
[[Category: Vedula LS]]
-
[[Category: Vedula, L S.]]
+
[[Category: Zhao Y]]
-
[[Category: Zhao, Y.]]
+
-
[[Category: 2-fluorofarnesyl diphosphate]]
+
-
[[Category: inorganic pyrophosphate]]
+
-
[[Category: lyase]]
+
-
[[Category: terpenoid synthase fold]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:46:45 2008''
+

Current revision

Trichodiene synthase: Complex with inorganic pyrophosphate resulting from the reaction with 2-fluorofarnesyl diphosphate

PDB ID 2q9z

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2q9z"
Personal tools