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4fba

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==Structure of mutant RIP from barley seeds in complex with adenine==
==Structure of mutant RIP from barley seeds in complex with adenine==
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<StructureSection load='4fba' size='340' side='right' caption='[[4fba]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
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<StructureSection load='4fba' size='340' side='right'caption='[[4fba]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4fba]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Barley Barley]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FBA FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4fba]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FBA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FBA FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADE:ADENINE'>ADE</scene></td></tr>
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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]] 1.85&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4fb9|4fb9]], [[4fbb|4fbb]], [[4fbc|4fbc]], [[4fbh|4fbh]]</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=ADE:ADENINE'>ADE</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">RIP30 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4513 Barley])</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=4fba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fba OCA], [https://pdbe.org/4fba PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fba RCSB], [https://www.ebi.ac.uk/pdbsum/4fba PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fba ProSAT]</span></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4fba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fba OCA], [http://pdbe.org/4fba PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4fba RCSB], [http://www.ebi.ac.uk/pdbsum/4fba PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4fba ProSAT]</span></td></tr>
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</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/RIP1_HORVU RIP1_HORVU]] Inhibits the elongation phase of protein synthesis. It inactivates fungal ribosomes even more effectively than mammalian ribosomes and is thought to function as a constitutive antifungal agent in plants.
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[https://www.uniprot.org/uniprot/RIP1_HORVU RIP1_HORVU] Inhibits the elongation phase of protein synthesis. It inactivates fungal ribosomes even more effectively than mammalian ribosomes and is thought to function as a constitutive antifungal agent in plants.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Ribosome-inactivating protein (RIP), a defence protein found in various plants, possesses different chain architectures and activation mechanisms. The RIP from barley (bRIP) is a type I RIP and has sequence features that are divergent from those of type I and type II RIPs from dicotyledonous plants and even the type III RIP from maize. This study presents the first crystal structure of an RIP from a cereal crop, barley, in free, AMP-bound and adenine-bound states. For phasing, a codon-optimized synthetic brip1 gene was used and a vector was constructed to overexpress soluble bRIP fusion proteins; such expression has been verified in a number of cases. The overall structure of bRIP shows folding similar to that observed in other RIPs but also shows significant differences in specific regions, particularly in a switch region that undergoes a structural transition between a 3(10)-helix and a loop depending on the liganded state. The switch region is in a position equivalent to that of a proteolytically susceptible and putative ribosome-binding site in type III RIPs. Thus, the bRIP structure confirms the detailed enzymatic mechanism of this N-glycosidase and reveals a novel activation mechanism for type I RIPs from cereal crops.
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Structures of the ribosome-inactivating protein from barley seeds reveal a unique activation mechanism.,Lee BG, Kim MK, Kim BW, Suh SW, Song HK Acta Crystallogr D Biol Crystallogr. 2012 Nov;68(Pt 11):1488-500. doi:, 10.1107/S0907444912037110. Epub 2012 Oct 13. PMID:23090398<ref>PMID:23090398</ref>
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==See Also==
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*[[Ribosome inactivating protein 3D structures|Ribosome inactivating protein 3D structures]]
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 4fba" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Barley]]
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[[Category: Hordeum vulgare]]
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[[Category: RRNA N-glycosylase]]
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[[Category: Large Structures]]
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[[Category: Kim, M K]]
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[[Category: Kim MK]]
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[[Category: Lee, B G]]
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[[Category: Lee B-G]]
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[[Category: Song, H K]]
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[[Category: Song HK]]
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[[Category: Suh, S W]]
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[[Category: Suh SW]]
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[[Category: Hydrolase]]
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[[Category: Ribosome]]
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[[Category: Ribosome inactivating protein]]
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[[Category: Rrna n-glycosylase activity]]
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Current revision

Structure of mutant RIP from barley seeds in complex with adenine

PDB ID 4fba

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