5h6k: Difference between revisions

Latest revision as of 09:15, 20 March 2024

DNA targeting ADP-ribosyltransferase Pierisin-1

Structural highlights

5h6k is a 2 chain structure with sequence from Pieris rapae. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.8Å
Ligands:	EDO
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PRSN_PIERA ADP-ribosylates double-stranded DNA by targeting the N2 amino group of dG residues; 10-fold less active on tRNA. Induces apoptosis in a range of human cell lines (PubMed:10485873, PubMed:11592983). May play a role in removing unnecessary or harmful cells during pupation (PubMed:15528160) (Probable). May play a role in defense against parasitic wasps; its habitual predator Cotesia glomerata is only susceptible after removal of its eggshell or the surface of the larval caudal vesicle, while other wasps are damaged by this protein (PubMed:23637752) (Probable). The wild-type catalytic domain (residues 1-233) cannot be expressed in E.coli as it is unstable probably due to its toxicity. A catalytic domain fragment (Glu-165 mutated to Gln) binds dsDNA but not ssDNA; the presence of the linker inhibits DNA-binding (PubMed:28765284).^[1] ^[2] ^[3] ^[4] ^[5]

References

↑ Watanabe M, Kono T, Matsushima-Hibiya Y, Kanazawa T, Nishisaka N, Kishimoto T, Koyama K, Sugimura T, Wakabayashi K. Molecular cloning of an apoptosis-inducing protein, pierisin, from cabbage butterfly: possible involvement of ADP-ribosylation in its activity. Proc Natl Acad Sci U S A. 1999 Sep 14;96(19):10608-13. PMID:10485873 doi:10.1073/pnas.96.19.10608
↑ Takamura-Enya T, Watanabe M, Totsuka Y, Kanazawa T, Matsushima-Hibiya Y, Koyama K, Sugimura T, Wakabayashi K. Mono(ADP-ribosyl)ation of 2'-deoxyguanosine residue in DNA by an apoptosis-inducing protein, pierisin-1, from cabbage butterfly. Proc Natl Acad Sci U S A. 2001 Oct 23;98(22):12414-9. PMID:11592983 doi:10.1073/pnas.221444598
↑ Oda T, Hirabayashi H, Shikauchi G, Takamura R, Hiraga K, Minami H, Hashimoto H, Yamamoto M, Wakabayashi K, Shimizu T, Sato M. Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1. J Biol Chem. 2017 Sep 15;292(37):15445-15455. doi: 10.1074/jbc.M117.776641. Epub , 2017 Aug 1. PMID:28765284 doi:https://dx.doi.org/10.1074/jbc.M117.776641
↑ Watanabe M, Nakano T, Shiotani B, Matsushima-Hibiya Y, Kiuchi M, Yukuhiro F, Kanazawa T, Koyama K, Sugimura T, Wakabayashi K. Developmental stage-specific expression and tissue distribution of pierisin-1, a guanine-specific ADP-ribosylating toxin, in Pieris rapae. Comp Biochem Physiol A Mol Integr Physiol. 2004 Oct;139(2):125-31. PMID:15528160 doi:10.1016/j.cbpb.2004.07.010
↑ Takahashi-Nakaguchi A, Matsumoto Y, Yamamoto M, Iwabuchi K, Totsuka Y, Sugimura T, Wakabayashi K. Demonstration of cytotoxicity against wasps by pierisin-1: a possible defense factor in the cabbage white butterfly. PLoS One. 2013 Apr 23;8(4):e60539. PMID:23637752 doi:10.1371/journal.pone.0060539

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Watanabe M, Kono T, Matsushima-Hibiya Y, Kanazawa T, Nishisaka N, Kishimoto T, Koyama K, Sugimura T, Wakabayashi K. Molecular cloning of an apoptosis-inducing protein, pierisin, from cabbage butterfly: possible involvement of ADP-ribosylation in its activity. Proc Natl Acad Sci U S A. 1999 Sep 14;96(19):10608-13. PMID:10485873 doi:10.1073/pnas.96.19.10608

[2] Takamura-Enya T, Watanabe M, Totsuka Y, Kanazawa T, Matsushima-Hibiya Y, Koyama K, Sugimura T, Wakabayashi K. Mono(ADP-ribosyl)ation of 2'-deoxyguanosine residue in DNA by an apoptosis-inducing protein, pierisin-1, from cabbage butterfly. Proc Natl Acad Sci U S A. 2001 Oct 23;98(22):12414-9. PMID:11592983 doi:10.1073/pnas.221444598

[3] Oda T, Hirabayashi H, Shikauchi G, Takamura R, Hiraga K, Minami H, Hashimoto H, Yamamoto M, Wakabayashi K, Shimizu T, Sato M. Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1. J Biol Chem. 2017 Sep 15;292(37):15445-15455. doi: 10.1074/jbc.M117.776641. Epub , 2017 Aug 1. PMID:28765284 doi:https://dx.doi.org/10.1074/jbc.M117.776641

[4] Watanabe M, Nakano T, Shiotani B, Matsushima-Hibiya Y, Kiuchi M, Yukuhiro F, Kanazawa T, Koyama K, Sugimura T, Wakabayashi K. Developmental stage-specific expression and tissue distribution of pierisin-1, a guanine-specific ADP-ribosylating toxin, in Pieris rapae. Comp Biochem Physiol A Mol Integr Physiol. 2004 Oct;139(2):125-31. PMID:15528160 doi:10.1016/j.cbpb.2004.07.010

[5] Takahashi-Nakaguchi A, Matsumoto Y, Yamamoto M, Iwabuchi K, Totsuka Y, Sugimura T, Wakabayashi K. Demonstration of cytotoxicity against wasps by pierisin-1: a possible defense factor in the cabbage white butterfly. PLoS One. 2013 Apr 23;8(4):e60539. PMID:23637752 doi:10.1371/journal.pone.0060539

[1]

[2]

[3]

[4]

[5]

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5h6k is ON HOLD
+==DNA targeting ADP-ribosyltransferase Pierisin-1==
+<StructureSection load='5h6k' size='340' side='right'caption='[[5h6k]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
-Authors:
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5h6k]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pieris_rapae Pieris rapae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H6K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H6K FirstGlance]. <br>
-Description:
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
-[[Category: Unreleased Structures]]
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></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=5h6k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h6k OCA], [https://pdbe.org/5h6k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h6k RCSB], [https://www.ebi.ac.uk/pdbsum/5h6k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h6k ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PRSN_PIERA PRSN_PIERA] ADP-ribosylates double-stranded DNA by targeting the N2 amino group of dG residues; 10-fold less active on tRNA. Induces apoptosis in a range of human cell lines (PubMed:10485873, PubMed:11592983). May play a role in removing unnecessary or harmful cells during pupation (PubMed:15528160) (Probable). May play a role in defense against parasitic wasps; its habitual predator Cotesia glomerata is only susceptible after removal of its eggshell or the surface of the larval caudal vesicle, while other wasps are damaged by this protein (PubMed:23637752) (Probable). The wild-type catalytic domain (residues 1-233) cannot be expressed in E.coli as it is unstable probably due to its toxicity. A catalytic domain fragment (Glu-165 mutated to Gln) binds dsDNA but not ssDNA; the presence of the linker inhibits DNA-binding (PubMed:28765284).<ref>PMID:10485873</ref> <ref>PMID:11592983</ref> <ref>PMID:28765284</ref> <ref>PMID:15528160</ref> <ref>PMID:23637752</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Pieris rapae]]
+[[Category: Hashimoto H]]
+[[Category: Hirabayashi H]]
+[[Category: Hiraga K]]
+[[Category: Minami H]]
+[[Category: Oda T]]
+[[Category: Sato M]]
+[[Category: Shikauchi G]]
+[[Category: Shimizu T]]
+[[Category: Sugimura T]]
+[[Category: Takamura R]]
+[[Category: Wakabayashi K]]
+[[Category: Yamamoto M]]

5h6k: Difference between revisions

Latest revision as of 09:15, 20 March 2024

DNA targeting ADP-ribosyltransferase Pierisin-1

Structural highlights

Function

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools