4rd2: Difference between revisions

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-'''Unreleased structure'''
-The entry 4rd2 is ON HOLD  until Paper Publication
+==Structure of aIF2-gamma H97A variant from Sulfolobus solfataricus bound to GDPNP==
+<StructureSection load='4rd2' size='340' side='right'caption='[[4rd2]], [[Resolution|resolution]] 1.58&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[4rd2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharolobus_solfataricus_P2 Saccharolobus solfataricus P2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RD2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RD2 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.585&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</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=4rd2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rd2 OCA], [https://pdbe.org/4rd2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rd2 RCSB], [https://www.ebi.ac.uk/pdbsum/4rd2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rd2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/IF2G_SACS2 IF2G_SACS2] eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.[HAMAP-Rule:MF_00119]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Eukaryotic and archaeal translation initiation processes involve a heterotrimeric GTPase e/aIF2 crucial for accuracy of start codon selection. In eukaryotes, the GTPase activity of eIF2 is assisted by a GTPase-activating protein (GAP), eIF5. In archaea, orthologs of eIF5 are not found and aIF2 GTPase activity is thought to be non-assisted. However, no in vitro GTPase activity of the archaeal factor has been reported to date. Here, we show that aIF2 significantly hydrolyses GTP in vitro. Within aIF2gamma, H97, corresponding to the catalytic histidine found in other translational GTPases, and D19, from the GKT loop, both participate in this activity. Several high-resolution crystal structures were determined to get insight into GTP hydrolysis by aIF2gamma. In particular, a crystal structure of the H97A mutant was obtained in the presence of non-hydrolyzed GTP. This structure reveals the presence of a second magnesium ion bound to GTP and D19. Quantum chemical/molecular mechanical simulations support the idea that the second magnesium ion may assist GTP hydrolysis by helping to neutralize the developing negative charge in the transition state. These results are discussed in light of the absence of an identified GAP in archaea to assist GTP hydrolysis on aIF2.
-Authors: Dubiez, E., Aleksandrov, A., Lazennec-Schurdevin, C., Mechulam, Y., Schmitt, E.
+Identification of a second GTP-bound magnesium ion in archaeal initiation factor 2.,Dubiez E, Aleksandrov A, Lazennec-Schurdevin C, Mechulam Y, Schmitt E Nucleic Acids Res. 2015 Mar 11;43(5):2946-57. doi: 10.1093/nar/gkv053. Epub 2015 , Feb 17. PMID:25690901<ref>PMID:25690901</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Lazennec-Schurdevin, C]]
+<div class="pdbe-citations 4rd2" style="background-color:#fffaf0;"></div>
-[[Category: Schmitt, E]]
+== References ==
-[[Category: Mechulam, Y]]
+<references/>
-[[Category: Dubiez, E]]
+__TOC__
-[[Category: Aleksandrov, A]]
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Saccharolobus solfataricus P2]]
+[[Category: Aleksandrov A]]
+[[Category: Dubiez E]]
+[[Category: Lazennec-Schurdevin C]]
+[[Category: Mechulam Y]]
+[[Category: Schmitt E]]