4bg4: Difference between revisions
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==Crystal structure of Litopenaeus vannamei arginine kinase in a ternary analog complex with arginine, ADP-Mg and NO3== | |||
<StructureSection load='4bg4' size='340' side='right'caption='[[4bg4]], [[Resolution|resolution]] 1.60Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[4bg4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Penaeus_vannamei Penaeus vannamei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BG4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BG4 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]] 1.601Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ARG:ARGININE'>ARG</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CSO:S-HYDROXYCYSTEINE'>CSO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</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=4bg4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bg4 OCA], [https://pdbe.org/4bg4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4bg4 RCSB], [https://www.ebi.ac.uk/pdbsum/4bg4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4bg4 ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/KARG0_PENVA KARG0_PENVA] Catalyzes the reversible transfer of high energy ATP gamma-phosphate group to L-arginine (PubMed:17496423, PubMed:27072556, PubMed:22750864, PubMed:23873077). Has nucleoside diphosphate kinase-like activity toward dTDP. Binds and phosphorylates dTDP using ATP as a phosphate donor. Does not phosphorylate dADP, dCDP, dGDP, dTMP or thymidine (PubMed:27072556).<ref>PMID:17496423</ref> <ref>PMID:22750864</ref> <ref>PMID:23873077</ref> <ref>PMID:27072556</ref> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Arginine kinase (AK) is a key enzyme for energetic balance in invertebrates. Although AK is a well-studied system that provides fast energy to invertebrates using the phosphagen phospho-arginine, the structural details on the AK-arginine binary complex interaction remain unclear. Herein, we determined two crystal structures of the Pacific whiteleg shrimp (Litopenaeus vannamei) arginine kinase, one in binary complex with arginine (LvAK-Arg) and a ternary transition state analog complex (TSAC). We found that the arginine guanidinium group makes ionic contacts with Glu225, Cys271 and a network of ordered water molecules. On the zwitterionic side of the amino acid, the backbone amide nitrogens of Gly64 and Val65 coordinate the arginine carboxylate. Glu314, one of proposed acid-base catalytic residues, did not interact with arginine in the binary complex. This residue is located in the flexible loop 310-320 that covers the active site and only stabilizes in the LvAK-TSAC. This is the first binary complex crystal structure of a guanidine kinase in complex with the guanidine substrate and could give insights into the nature of the early steps of phosphagen biosynthesis. | |||
Crystal structure of shrimp arginine kinase in binary complex with arginine-a molecular view of the phosphagen precursor binding to the enzyme.,Lopez-Zavala AA, Garcia-Orozco KD, Carrasco-Miranda JS, Sugich-Miranda R, Velazquez-Contreras EF, Criscitiello MF, Brieba LG, Rudino-Pinera E, Sotelo-Mundo RR J Bioenerg Biomembr. 2013 Jul 20. PMID:23873077<ref>PMID:23873077</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 4bg4" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Arginine kinase 3D structures|Arginine kinase 3D structures]] | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Penaeus vannamei]] | |||
[[Category: Carrasco-Miranda JS]] | |||
[[Category: Criscitiello MF]] | |||
[[Category: GBrieba L]] | |||
[[Category: Garcia-Orozco KD]] | |||
[[Category: Lopez-Zavala AA]] | |||
[[Category: Rudino-Pinera E]] | |||
[[Category: Sotelo-Mundo RR]] | |||
[[Category: Sugich-Miranda R]] | |||
[[Category: Velazquez-Contreras EF]] | |||