4psb: Difference between revisions

Revision as of 07:28, 8 February 2023

Crystal Structure of Phytohormone Binding Protein from Vigna radiata in complex with gibberellic acid (GA3)

Structural highlights

4psb is a 1 chain structure with sequence from Vigna radiata. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	GA3
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PHBP_VIGRR Binds the cytokinin trans-zeatin in vitro (PubMed:16998071, PubMed:18453695). Binds gibberellin A3 (GA3) in vitro (PubMed:25004979).^[1] ^[2] ^[3]

Publication Abstract from PubMed

Pathogenesis-related proteins of class 10 (PR-10) are a family of plant proteins with the same fold characterized by a large hydrophobic cavity that allows them to bind various ligands, such as phytohormones. A subfamily with only approximately 20% sequence identity but with a conserved canonical PR-10 fold have previously been recognized as Cytokinin-Specific Binding Proteins (CSBPs), although structurally the binding mode of trans-zeatin (a cytokinin phytohormone) was found to be quite diversified. Here, it is shown that two CSBP orthologues from Medicago truncatula and Vigna radiata bind gibberellic acid (GA3), which is an entirely different phytohormone, in a conserved and highly specific manner. In both cases a single GA3 molecule is found in the internal cavity of the protein. The structural data derived from high-resolution crystal structures are corroborated by isothermal titration calorimetry (ITC), which reveals a much stronger interaction with GA3 than with trans-zeatin and pH dependence of the binding profile. As a conclusion, it is postulated that the CSBP subfamily of plant PR-10 proteins should be more properly linked with general phytohormone-binding properties and termed phytohormone-binding proteins (PhBP).

Specific binding of gibberellic acid by Cytokinin-Specific Binding Proteins: a new aspect of plant hormone-binding proteins with the PR-10 fold.,Ruszkowski M, Sliwiak J, Ciesielska A, Barciszewski J, Sikorski M, Jaskolski M Acta Crystallogr D Biol Crystallogr. 2014 Jul 1;70(Pt 7):2032-41. doi:, 10.1107/S1399004714010578. Epub 2014 Jun 29. PMID:25004979^[4]

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

References

↑ Pasternak O, Bujacz GD, Fujimoto Y, Hashimoto Y, Jelen F, Otlewski J, Sikorski MM, Jaskolski M. Crystal structure of Vigna radiata cytokinin-specific binding protein in complex with zeatin. Plant Cell. 2006 Oct;18(10):2622-34. Epub 2006 Sep 22. PMID:16998071 doi:10.1105/tpc.105.037119
↑ Pasternak O, Bujacz A, Biesiadka J, Bujacz G, Sikorski M, Jaskolski M. MAD phasing using the (Ta6Br12)2+ cluster: a retrospective study. Acta Crystallogr D Biol Crystallogr. 2008 May;64(Pt 5):595-606. Epub 2008, Apr 19. PMID:18453695 doi:10.1107/S0907444908007853
↑ Ruszkowski M, Sliwiak J, Ciesielska A, Barciszewski J, Sikorski M, Jaskolski M. Specific binding of gibberellic acid by Cytokinin-Specific Binding Proteins: a new aspect of plant hormone-binding proteins with the PR-10 fold. Acta Crystallogr D Biol Crystallogr. 2014 Jul 1;70(Pt 7):2032-41. doi:, 10.1107/S1399004714010578. Epub 2014 Jun 29. PMID:25004979 doi:https://dx.doi.org/10.1107/S1399004714010578
↑ Ruszkowski M, Sliwiak J, Ciesielska A, Barciszewski J, Sikorski M, Jaskolski M. Specific binding of gibberellic acid by Cytokinin-Specific Binding Proteins: a new aspect of plant hormone-binding proteins with the PR-10 fold. Acta Crystallogr D Biol Crystallogr. 2014 Jul 1;70(Pt 7):2032-41. doi:, 10.1107/S1399004714010578. Epub 2014 Jun 29. PMID:25004979 doi:https://dx.doi.org/10.1107/S1399004714010578

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OCA

[1] Pasternak O, Bujacz GD, Fujimoto Y, Hashimoto Y, Jelen F, Otlewski J, Sikorski MM, Jaskolski M. Crystal structure of Vigna radiata cytokinin-specific binding protein in complex with zeatin. Plant Cell. 2006 Oct;18(10):2622-34. Epub 2006 Sep 22. PMID:16998071 doi:10.1105/tpc.105.037119

[2] Pasternak O, Bujacz A, Biesiadka J, Bujacz G, Sikorski M, Jaskolski M. MAD phasing using the (Ta6Br12)2+ cluster: a retrospective study. Acta Crystallogr D Biol Crystallogr. 2008 May;64(Pt 5):595-606. Epub 2008, Apr 19. PMID:18453695 doi:10.1107/S0907444908007853

[3] Ruszkowski M, Sliwiak J, Ciesielska A, Barciszewski J, Sikorski M, Jaskolski M. Specific binding of gibberellic acid by Cytokinin-Specific Binding Proteins: a new aspect of plant hormone-binding proteins with the PR-10 fold. Acta Crystallogr D Biol Crystallogr. 2014 Jul 1;70(Pt 7):2032-41. doi:, 10.1107/S1399004714010578. Epub 2014 Jun 29. PMID:25004979 doi:https://dx.doi.org/10.1107/S1399004714010578

[4] Ruszkowski M, Sliwiak J, Ciesielska A, Barciszewski J, Sikorski M, Jaskolski M. Specific binding of gibberellic acid by Cytokinin-Specific Binding Proteins: a new aspect of plant hormone-binding proteins with the PR-10 fold. Acta Crystallogr D Biol Crystallogr. 2014 Jul 1;70(Pt 7):2032-41. doi:, 10.1107/S1399004714010578. Epub 2014 Jun 29. PMID:25004979 doi:https://dx.doi.org/10.1107/S1399004714010578

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[2]

[3]

[4]

@@ Line 1: / Line 1: @@
 ==Crystal Structure of Phytohormone Binding Protein from Vigna radiata in complex with gibberellic acid (GA3)==
-<StructureSection load='4psb' size='340' side='right' caption='[[4psb]], [[Resolution|resolution]] 1.42&Aring;' scene=''>
+<StructureSection load='4psb' size='340' side='right'caption='[[4psb]], [[Resolution|resolution]] 1.42&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4psb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mung_bean Mung bean]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PSB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PSB FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4psb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vigna_radiata Vigna radiata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PSB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PSB FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GA3:GIBBERELLIN+A3'>GA3</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GA3:GIBBERELLIN+A3'>GA3</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2flh|2flh]], [[3us7|3us7]], [[4jhg|4jhg]], [[2qim|2qim]]</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=4psb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4psb OCA], [https://pdbe.org/4psb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4psb RCSB], [https://www.ebi.ac.uk/pdbsum/4psb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4psb ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">vrphbp ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=157791 Mung bean])</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=4psb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4psb OCA], [http://pdbe.org/4psb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4psb RCSB], [http://www.ebi.ac.uk/pdbsum/4psb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4psb ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/PHBP_VIGRR PHBP_VIGRR] Binds the cytokinin trans-zeatin in vitro (PubMed:16998071, PubMed:18453695). Binds gibberellin A3 (GA3) in vitro (PubMed:25004979).<ref>PMID:16998071</ref> <ref>PMID:18453695</ref> <ref>PMID:25004979</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Mung bean]]
+[[Category: Large Structures]]
-[[Category: Jaskolski, M]]
+[[Category: Vigna radiata]]
-[[Category: Ruszkowski, M]]
+[[Category: Jaskolski M]]
-[[Category: Sikorski, M]]
+[[Category: Ruszkowski M]]
-[[Category: Cytokinin]]
+[[Category: Sikorski M]]
-[[Category: Gibberellin]]
-[[Category: Plant hormone binding]]
-[[Category: Plant protein]]
-[[Category: Pr-10 fold]]

4psb: Difference between revisions

Revision as of 07:28, 8 February 2023

Crystal Structure of Phytohormone Binding Protein from Vigna radiata in complex with gibberellic acid (GA3)

Structural highlights

Function

Publication Abstract from PubMed

References

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