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5mxb

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Crystal structure of yellow lupin LLPR-10.2B protein in complex with melatonin

Structural highlights

5mxb is a 1 chain structure with sequence from Lupinus luteus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.51Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

P102B_LUPLU Class II ribonuclease (RNase) (By similarity). Binds to several cytokinins including natural adenine-type (e.g. trans-zeatin and kinetin) and artificial urea-type (e.g. N,N'-diphenylurea and N-phenyl-N'-(2-chloro-4-pyridyl)urea) hormones (PubMed:18406424, PubMed:19220853, PubMed:29630775). Interacts with melatonin (PubMed:29630775).[UniProtKB:P52779]^[1] ^[2] ^[3]

Publication Abstract from PubMed

LlPR-10.2B, a Pathogenesis-Related class 10 (PR-10) protein from yellow lupine (Lupinus luteus) was crystallized in complex with melatonin, an emerging important plant regulator and antioxidant. The structure reveals two molecules of melatonin bound in the internal cavity of the protein, plus a very well defined electron density near the cavity entrance, corresponding to an unknown ligand molecule comprised of two flat rings, which is most likely a product of melatonin transformation. In a separate LlPR-10.2B co-crystallization experiment with an equimolar mixture of melatonin and trans-zeatin, which is a cytokinin phytohormone well recognized as a PR-10 binding partner, a quaternary 1:1:1:1 complex was formed, in which one of the melatonin binding sites has been substituted with trans-zeatin, whereas the binding of melatonin at the second binding site and binding of the unknown ligand are undisturbed. This unusual complex, when compared with the previously described PR-10/trans-zeatin complexes and with the emerging structural information about melatonin binding by PR-10 proteins, provides intriguing insights into the role of PR-10 proteins in phytohormone regulation in plants, especially with the involvement of melatonin, and implicates the PR-10 proteins as low-affinity melatonin binders under the conditions of elevated melatonin concentration. This article is protected by copyright. All rights reserved.

PR-10 proteins as potential mediators of melatonin-cytokinin cross-talk in plants: crystallographic studies of LlPR-10.2B isoform from yellow lupine.,Sliwiak J, Sikorski M, Jaskolski M FEBS J. 2018 Apr 6. doi: 10.1111/febs.14455. PMID:29630775^[4]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Fernandes H, Pasternak O, Bujacz G, Bujacz A, Sikorski MM, Jaskolski M. Lupinus luteus pathogenesis-related protein as a reservoir for cytokinin. J Mol Biol. 2008 May 16;378(5):1040-51. Epub 2008 Mar 19. PMID:18406424 doi:10.1016/j.jmb.2008.03.027
↑ Fernandes H, Bujacz A, Bujacz G, Jelen F, Jasinski M, Kachlicki P, Otlewski J, Sikorski MM, Jaskolski M. Cytokinin-induced structural adaptability of a Lupinus luteus PR-10 protein. FEBS J. 2009 Mar;276(6):1596-609. Epub 2009 Feb 11. PMID:19220853 doi:10.1111/j.1742-4658.2009.06892.x
↑ Sliwiak J, Sikorski M, Jaskolski M. PR-10 proteins as potential mediators of melatonin-cytokinin cross-talk in plants: crystallographic studies of LlPR-10.2B isoform from yellow lupine. FEBS J. 2018 Apr 6. doi: 10.1111/febs.14455. PMID:29630775 doi:http://dx.doi.org/10.1111/febs.14455
↑ Sliwiak J, Sikorski M, Jaskolski M. PR-10 proteins as potential mediators of melatonin-cytokinin cross-talk in plants: crystallographic studies of LlPR-10.2B isoform from yellow lupine. FEBS J. 2018 Apr 6. doi: 10.1111/febs.14455. PMID:29630775 doi:http://dx.doi.org/10.1111/febs.14455

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5mxb"

Categories: Large Structures | Lupinus luteus | Jaskolski M | Sikorski M | Sliwiak J

@@ Line 1: / Line 1: @@
 ==Crystal structure of yellow lupin LLPR-10.2B protein in complex with melatonin==
-<StructureSection load='5mxb' size='340' side='right' caption='[[5mxb]], [[Resolution|resolution]] 1.51&Aring;' scene=''>
+<StructureSection load='5mxb' size='340' side='right'caption='[[5mxb]], [[Resolution|resolution]] 1.51&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5mxb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MXB FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5mxb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lupinus_luteus Lupinus luteus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MXB FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ML1:N-[2-(5-METHOXY-1H-INDOL-3-YL)ETHYL]ACETAMIDE'>ML1</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</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]] 1.51&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5mxw|5mxw]], [[5i8f|5i8f]], [[5c9y|5c9y]], [[4ryv|4ryv]], [[4n3e|4n3e]], [[4q0k|4q0k]], [[4y31|4y31]], [[4jhi|4jhi]], [[4jhg|4jhg]], [[4gy9|4gy9]], [[3e85|3e85]], [[2qim|2qim]], [[2flh|2flh]], [[1icx|1icx]], [[1ifv|1ifv]], [[4psb|4psb]], [[4jhh|4jhh]], [[3ie5|3ie5]], [[1xdf|1xdf]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ML1:N-[2-(5-METHOXY-1H-INDOL-3-YL)ETHYL]ACETAMIDE'>ML1</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene></td></tr>
-<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=5mxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxb OCA], [http://pdbe.org/5mxb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mxb RCSB], [http://www.ebi.ac.uk/pdbsum/5mxb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxb 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=5mxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxb OCA], [https://pdbe.org/5mxb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mxb RCSB], [https://www.ebi.ac.uk/pdbsum/5mxb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxb ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/P102B_LUPLU P102B_LUPLU] Class II ribonuclease (RNase) (By similarity). Binds to several cytokinins including natural adenine-type (e.g. trans-zeatin and kinetin) and artificial urea-type (e.g. N,N'-diphenylurea and N-phenyl-N'-(2-chloro-4-pyridyl)urea) hormones (PubMed:18406424, PubMed:19220853, PubMed:29630775). Interacts with melatonin (PubMed:29630775).[UniProtKB:P52779]<ref>PMID:18406424</ref> <ref>PMID:19220853</ref> <ref>PMID:29630775</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Jaskolski, M]]
+[[Category: Large Structures]]
-[[Category: Sikorski, M]]
+[[Category: Lupinus luteus]]
-[[Category: Sliwiak, J]]
+[[Category: Jaskolski M]]
-[[Category: Melatonin]]
+[[Category: Sikorski M]]
-[[Category: Phytohormon binding protein]]
+[[Category: Sliwiak J]]
-[[Category: Plant protein]]
-[[Category: Pr-10 protein]]

5mxb

From Proteopedia

Current revision

Crystal structure of yellow lupin LLPR-10.2B protein in complex with melatonin

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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