8i7p

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'''Unreleased structure'''
 
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The entry 8i7p is ON HOLD until Paper Publication
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==Crystal structure of Ricin A chain bound with N2-(2-amino-4-oxo-3,4-dihydropteridine-7-carbonyl)glycyl-L-tyrosine==
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<StructureSection load='8i7p' size='340' side='right'caption='[[8i7p]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[8i7p]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I7P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I7P FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=OV9:2-azanyl-4-oxidanylidene-3~{H}-pteridine-7-carboxylic+acid'>OV9</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=8i7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i7p OCA], [https://pdbe.org/8i7p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i7p RCSB], [https://www.ebi.ac.uk/pdbsum/8i7p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i7p ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RICI_RICCO RICI_RICCO] Ricin is highly toxic to animal cells and to a lesser extent to plant cells. The A chain acts as a glycosidase that removes a specific adenine residue from an exposed loop of the 28S rRNA (A4324 in mammals), leading to rRNA breakage. As this loop is involved in elongation factor binding, modified ribosomes are catalytically inactive and unable to support protein synthesis. The A chain can inactivate a few thousand ribosomes per minute, faster than the cell can make new ones. Therefore a single A chain molecule can kill an animal cell. The B chain binds to beta-D-galactopyranoside moieties on cell surface glycoproteins and glycolipids and facilitates the entry into the cell of the A chain; B chains are also responsible for cell agglutination (Lectin activity).
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Ricin toxin A chain (RTA), from Ricinus communis, is a deadly protein that inactivates ribosomes by degrading an adenine residue at position 4324 in 28S rRNA. Recently, we have demonstrated that pterin-7-carboxamides with peptide pendants were potent RTA inhibitors. Among these, N-(pterin-7-carbonyl)glycyl-L-tyrosine (7PCGY) is the most potent RTA inhibitor as a small organic molecule. However, despite this fascinating inhibitory activity, the mode of interaction of 7PCGY with RTA remains elusive. This study aimed to elucidate the factors responsible for the high RTA inhibitory activity of 7PCGY based on X-ray crystallographic analysis. Herein, we report the successfully resolved X-ray crystal structure of 7PCGY/RTA complexes, revealing that the interaction between the phenolic hydroxy group in 7PCGY and Asn78 of RTA through a hydrogen bonding and the conformational change of Tyr80 and Asn122 are responsible for the high RTA inhibitory activity of 7PCGY.
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Authors: Goto, M., Sakamoto, N., Higashi, S., Kawata, R., Nagatsu, K., Saito, R.
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Crystal structure of ricin toxin A chain complexed with a highly potent pterin-based small-molecular inhibitor.,Goto M, Sakamoto N, Higashi S, Kawata R, Nagatsu K, Saito R J Enzyme Inhib Med Chem. 2023 Dec;38(1):2219038. doi: , 10.1080/14756366.2023.2219038. PMID:37259593<ref>PMID:37259593</ref>
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Description: Crystal structure of Ricin A chain bound with N2-(2-amino-4-oxo-3,4-dihydropteridine-7-carbonyl)glycyl-L-tyrosine
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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[[Category: Unreleased Structures]]
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</div>
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[[Category: Nagatsu, K]]
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<div class="pdbe-citations 8i7p" style="background-color:#fffaf0;"></div>
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[[Category: Saito, R]]
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== References ==
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[[Category: Kawata, R]]
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<references/>
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[[Category: Goto, M]]
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__TOC__
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[[Category: Higashi, S]]
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</StructureSection>
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[[Category: Sakamoto, N]]
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[[Category: Large Structures]]
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[[Category: Ricinus communis]]
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[[Category: Synthetic construct]]
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[[Category: Goto M]]
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[[Category: Higashi S]]
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[[Category: Kawata R]]
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[[Category: Nagatsu K]]
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[[Category: Saito R]]
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[[Category: Sakamoto N]]

Revision as of 14:44, 20 September 2023

Crystal structure of Ricin A chain bound with N2-(2-amino-4-oxo-3,4-dihydropteridine-7-carbonyl)glycyl-L-tyrosine

PDB ID 8i7p

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