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<StructureSection load='3hio' size='340' side='right'caption='[[3hio]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
<StructureSection load='3hio' size='340' side='right'caption='[[3hio]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3hio]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Castor_bean Castor bean]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HIO FirstGlance]. <br>
<table><tr><td colspan='2'>[[3hio]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HIO FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C2X:9,9-{(2R,3R,3AR,5S,7AR,9R,10R,10AR,12S,23R,25AR,27R,28R,28AR,30S,32AR,35AR,37S,39AR)-9-(6-AMINO-9H-PURIN-9-YL)-34-[(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)METHYL]-5,12,23,30,37-PENTAHYDROXY-3,10,28-TRIMETHOXY-5,12,23,30,37-PENTAOXIDOTETRACOSAHYDRO-2H,7H,25H-TRIFURO[3,2-F 3,2-L 3,2-X]PYRROLO[3,4-R][1,3,5,9,11,15,17,21,23,27,29,2,4,10,16,22,28]UNDECAOXAZAPENTAPHOSPHACYCLOPENTATRIACONTINE-2,27-DIYL}BIS(2-AMINO-3,9-DIHYDRO-6H-PURIN-6-ONE)'>C2X</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3hiq|3hiq]], [[3his|3his]], [[3hit|3hit]], [[3hiv|3hiv]], [[3hiw|3hiw]]</div></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C2X:9,9-{(2R,3R,3AR,5S,7AR,9R,10R,10AR,12S,23R,25AR,27R,28R,28AR,30S,32AR,35AR,37S,39AR)-9-(6-AMINO-9H-PURIN-9-YL)-34-[(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)METHYL]-5,12,23,30,37-PENTAHYDROXY-3,10,28-TRIMETHOXY-5,12,23,30,37-PENTAOXIDOTETRACOSAHYDRO-2H,7H,25H-TRIFURO[3,2-F 3,2-L 3,2-X]PYRROLO[3,4-R][1,3,5,9,11,15,17,21,23,27,29,2,4,10,16,22,28]UNDECAOXAZAPENTAPHOSPHACYCLOPENTATRIACONTINE-2,27-DIYL}BIS(2-AMINO-3,9-DIHYDRO-6H-PURIN-6-ONE)'>C2X</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </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=3hio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hio OCA], [https://pdbe.org/3hio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hio RCSB], [https://www.ebi.ac.uk/pdbsum/3hio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hio 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=3hio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hio OCA], [https://pdbe.org/3hio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hio RCSB], [https://www.ebi.ac.uk/pdbsum/3hio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hio ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[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).  
[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).
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3hio ConSurf].
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3hio ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Ricin A-chain (RTA) and saporin-L1 (SAP) catalyze adenosine depurination of 28S rRNA to inhibit protein synthesis and cause cell death. We present the crystal structures of RTA and SAP in complex with transition state analogue inhibitors. These tight-binding inhibitors mimic the sarcin-ricin recognition loop of 28S rRNA and the dissociative ribocation transition state established for RTA catalysis. RTA and SAP share unique purine-binding geometry with quadruple pi-stacking interactions between adjacent adenine and guanine bases and 2 conserved tyrosines. An arginine at one end of the pi-stack provides cationic polarization and enhanced leaving group ability to the susceptible adenine. Common features of these ribosome-inactivating proteins include adenine leaving group activation, a remarkable lack of ribocation stabilization, and conserved glutamates as general bases for activation of the H(2)O nucleophile. Catalytic forces originate primarily from leaving group activation evident in both RTA and SAP in complex with transition state analogues.
Transition state analogues in structures of ricin and saporin ribosome-inactivating proteins.,Ho MC, Sturm MB, Almo SC, Schramm VL Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20276-81. Epub 2009 Nov 17. PMID:19920175<ref>PMID:19920175</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3hio" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Ricin 3D structures|Ricin 3D structures]]
*[[Ricin 3D structures|Ricin 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Castor bean]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: RRNA N-glycosylase]]
[[Category: Ricinus communis]]
[[Category: Almo, S C]]
[[Category: Almo SC]]
[[Category: Goldman, J D]]
[[Category: Goldman JD]]
[[Category: Ho, M]]
[[Category: Ho M]]
[[Category: Schramm, V L]]
[[Category: Schramm VL]]
[[Category: Sturm, M B]]
[[Category: Sturm MB]]
[[Category: Disulfide bond]]
[[Category: Glycoprotein]]
[[Category: Hydrolase]]
[[Category: Hydrolase-hydrolase inhibitor complex]]
[[Category: Lectin]]
[[Category: Nucleotide-binding]]
[[Category: Plant defense]]
[[Category: Protein synthesis inhibitor]]
[[Category: Ribosome inactivating protein]]
[[Category: Rip]]
[[Category: Rta]]
[[Category: Toxin]]
[[Category: Transition state]]

Latest revision as of 10:00, 21 February 2024

Crystal structure of Ricin A-chain in complex with the cyclic tetranucleotide inhibitor, a transition state analogue

3hio, resolution 2.00Å

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