2j1p

From Proteopedia

(Difference between revisions)

Current revision

Geranylgeranyl diphosphate synthase from Sinapis alba in complex with GGPP

Structural highlights

2j1p is a 2 chain structure with sequence from Sinapis alba. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.8Å
Ligands:	, , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

GGPPS_SINAL

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The crystal structure of the geranylgeranyl diphosphate synthase from Sinapis alba (mustard) has been solved in two crystal forms at 1.8 and 2.0 A resolutions. In one of these forms, the dimeric enzyme binds one molecule of the final product geranylgeranyl diphosphate in one subunit. The chainfold of the enzyme corresponds to that of other members of the farnesyl diphosphate synthase family. Whereas the binding modes of the two substrates dimethylallyl diphosphate and isopentenyl diphosphate at the allyl and isopentenyl sites, respectively, have been established with other members of the family, the complex structure presented reveals for the first time the binding mode of a reaction product at the isopentenyl site. The binding geometry of substrates and product in conjunction with the protein environment and the established chemistry of the reaction provide a clear picture of the reaction steps and atom displacements. Moreover, a comparison with a ligated homologous structure outlined an appreciable induced fit: helix alpha8 and its environment undergo a large conformational change when either the substrate dimethylallyl diphosphate or an analogue is bound to the allyl site; only a minor conformational change occurs when the other substrate isopentenyl diphosphate or the product is bound to the isopentenyl site.

Structure and reaction geometry of geranylgeranyl diphosphate synthase from Sinapis alba.,Kloer DP, Welsch R, Beyer P, Schulz GE Biochemistry. 2006 Dec 26;45(51):15197-204. Epub 2006 Dec 1. PMID:17176041^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Kloer DP, Welsch R, Beyer P, Schulz GE. Structure and reaction geometry of geranylgeranyl diphosphate synthase from Sinapis alba. Biochemistry. 2006 Dec 26;45(51):15197-204. Epub 2006 Dec 1. PMID:17176041 doi:10.1021/bi061572k

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2j1p"

@@ Line 3: / Line 3: @@
 <StructureSection load='2j1p' size='340' side='right'caption='[[2j1p]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2j1p]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brassica_hirta Brassica hirta]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2J1P OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2J1P FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2j1p]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Sinapis_alba Sinapis alba]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2J1P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2J1P FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GRG:GERANYLGERANYL+DIPHOSPHATE'>GRG</scene>, <scene name='pdbligand=PGO:S-1,2-PROPANEDIOL'>PGO</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]] 1.8&#8491;</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GRG:GERANYLGERANYL+DIPHOSPHATE'>GRG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PGO:S-1,2-PROPANEDIOL'>PGO</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2j1o|2j1o]]</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=2j1p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2j1p OCA], [https://pdbe.org/2j1p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2j1p RCSB], [https://www.ebi.ac.uk/pdbsum/2j1p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2j1p 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=2j1p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2j1p OCA], [http://pdbe.org/2j1p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2j1p RCSB], [http://www.ebi.ac.uk/pdbsum/2j1p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2j1p ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/GGPPS_SINAL GGPPS_SINAL]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 14: / Line 15: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/j1/2j1p_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 35: / Line 36: @@
 __TOC__
 </StructureSection>
-[[Category: Brassica hirta]]
 [[Category: Large Structures]]
-[[Category: Beyer, P]]
+[[Category: Sinapis alba]]
-[[Category: Kloer, D P]]
+[[Category: Beyer P]]
-[[Category: Schulz, G E]]
+[[Category: Kloer DP]]
-[[Category: Welsch, R]]
+[[Category: Schulz GE]]
-[[Category: Carotenoid biosynthesis]]
+[[Category: Welsch R]]
-[[Category: Chloroplast]]
-[[Category: Geranylgeranyl diphosphate]]
-[[Category: Isoprene biosynthesis]]
-[[Category: Isoprenoid diphosphate synthase]]
-[[Category: Isoprenyl transtransferase]]
-[[Category: Multifunctional enzyme]]
-[[Category: Transferase]]
-[[Category: Transit peptide]]

2j1p

From Proteopedia

Current revision

Geranylgeranyl diphosphate synthase from Sinapis alba in complex with GGPP

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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