4f0k: Difference between revisions

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== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[4f0k]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Galdieria_sulphuraria Galdieria sulphuraria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4F0K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4F0K FirstGlance]. <br>
<table><tr><td colspan='2'>[[4f0k]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Galdieria_sulphuraria Galdieria sulphuraria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4F0K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4F0K FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CO2:CARBON+DIOXIDE'>CO2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SNC:S-NITROSO-CYSTEINE'>SNC</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]] 2.05&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CO2:CARBON+DIOXIDE'>CO2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SNC:S-NITROSO-CYSTEINE'>SNC</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=4f0k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f0k OCA], [https://pdbe.org/4f0k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4f0k RCSB], [https://www.ebi.ac.uk/pdbsum/4f0k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4f0k 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=4f0k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f0k OCA], [https://pdbe.org/4f0k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4f0k RCSB], [https://www.ebi.ac.uk/pdbsum/4f0k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4f0k ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[https://www.uniprot.org/uniprot/RBL_GALSU RBL_GALSU] RuBisCO catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate in the photorespiration process. Both reactions occur simultaneously and in competition at the same active site.[HAMAP-Rule:MF_01338]
[https://www.uniprot.org/uniprot/RBL_GALSU RBL_GALSU] RuBisCO catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate in the photorespiration process. Both reactions occur simultaneously and in competition at the same active site.[HAMAP-Rule:MF_01338]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Ribulose 1,5-bisphosphate carboxylase/oxygenase (RuBisCO) is a crucial enzyme in carbon fixation and the most abundant protein on earth. It has been studied extensively by biochemical and structural methods; however, the most essential activation step has not yet been described. Here, we describe the mechanistic details of Lys carbamylation that leads to RuBisCO activation by atmospheric CO(2). We report two crystal structures of nitrosylated RuBisCO from the red algae Galdieria sulphuraria with O(2) and CO(2) bound at the active site. G. sulphuraria RuBisCO is inhibited by cysteine nitrosylation that results in trapping of these gaseous ligands. The structure with CO(2) defines an elusive, preactivation complex that contains a metal cation Mg(2+) surrounded by three H(2)O/OH molecules. Both structures suggest the mechanism for discriminating gaseous ligands by their quadrupole electric moments. We describe conformational changes that allow for intermittent binding of the metal ion required for activation. On the basis of these structures we propose the individual steps of the activation mechanism. Knowledge of all these elements is indispensable for engineering RuBisCO into a more efficient enzyme for crop enhancement or as a remedy to global warming.
Structural mechanism of RuBisCO activation by carbamylation of the active site lysine.,Stec B Proc Natl Acad Sci U S A. 2012 Oct 29. PMID:23112176<ref>PMID:23112176</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 4f0k" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[RuBisCO 3D structures|RuBisCO 3D structures]]
*[[RuBisCO 3D structures|RuBisCO 3D structures]]
== References ==
<references/>
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__TOC__
</StructureSection>
</StructureSection>

Revision as of 18:13, 14 March 2024

UNACTIVATED RUBISCO with MAGNESIUM AND CARBON DIOXIDE BOUNDUNACTIVATED RUBISCO with MAGNESIUM AND CARBON DIOXIDE BOUND

Structural highlights

4f0k is a 2 chain structure with sequence from Galdieria sulphuraria. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.05Å
Ligands:, , , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

RBL_GALSU RuBisCO catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate in the photorespiration process. Both reactions occur simultaneously and in competition at the same active site.[HAMAP-Rule:MF_01338]

See Also

4f0k, resolution 2.05Å

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