2rp5: Difference between revisions

Latest revision as of 12:54, 20 December 2023

Solution structure of the oligomerization domain in CEP-1

Structural highlights

2rp5 is a 2 chain structure with sequence from Caenorhabditis elegans. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Solution NMR
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CEP1_CAEEL Transcriptional activator that binds the same DNA consensus sequence as p53. Has a role in normal development to ensure proper meiotic chromosome segregation. Promotes apoptosis under conditions of cellular and genotoxic stress in response to DNA damage, hypoxia, or starvation. However, not required for DNA repair in response to UV-C or to regulate cell-cycle progression. Required for induction of ced-13 in response to DNA damage. Regulates germline proliferation by activating phg-1.^[1] ^[2] ^[3] ^[4] ^[5] ^[6] ^[7] ^[8] ^[9] ^[10] ^[11] ^[12] ^[13] ^[14]

Publication Abstract from PubMed

The tetrameric state of p53, p63, and p73 has been considered one of the hallmarks of this protein family. While the DNA binding domain (DBD) is highly conserved among vertebrates and invertebrates, sequences C-terminal to the DBD are highly divergent. In particular, the oligomerization domain (OD) of the p53 forms of the model organisms Caenorhabditis elegans and Drosophila cannot be identified by sequence analysis. Here, we present the solution structures of their ODs and show that they both differ significantly from each other as well as from human p53. CEP-1 contains a composite domain of an OD and a sterile alpha motif (SAM) domain, and forms dimers instead of tetramers. The Dmp53 structure is characterized by an additional N-terminal beta-strand and a C-terminal helix. Truncation analysis in both domains reveals that the additional structural elements are necessary to stabilize the structure of the OD, suggesting a new function for the SAM domain. Furthermore, these structures show a potential path of evolution from an ancestral dimeric form over a tetrameric form, with additional stabilization elements, to the tetramerization domain of mammalian p53.

Structural evolution of C-terminal domains in the p53 family.,Ou HD, Lohr F, Vogel V, Mantele W, Dotsch V EMBO J. 2007 Jul 25;26(14):3463-73. Epub 2007 Jun 21. PMID:17581633^[15]

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

References

↑ Schumacher B, Hofmann K, Boulton S, Gartner A. The C. elegans homolog of the p53 tumor suppressor is required for DNA damage-induced apoptosis. Curr Biol. 2001 Oct 30;11(21):1722-7. PMID:11696333
↑ Derry WB, Putzke AP, Rothman JH. Caenorhabditis elegans p53: role in apoptosis, meiosis, and stress resistance. Science. 2001 Oct 19;294(5542):591-5. Epub 2001 Sep 13. PMID:11557844 doi:https://dx.doi.org/10.1126/science.1065486
↑ Hofmann ER, Milstein S, Boulton SJ, Ye M, Hofmann JJ, Stergiou L, Gartner A, Vidal M, Hengartner MO. Caenorhabditis elegans HUS-1 is a DNA damage checkpoint protein required for genome stability and EGL-1-mediated apoptosis. Curr Biol. 2002 Nov 19;12(22):1908-18. PMID:12445383
↑ Deng X, Hofmann ER, Villanueva A, Hobert O, Capodieci P, Veach DR, Yin X, Campodonico L, Glekas A, Cordon-Cardo C, Clarkson B, Bornmann WG, Fuks Z, Hengartner MO, Kolesnick R. Caenorhabditis elegans ABL-1 antagonizes p53-mediated germline apoptosis after ionizing irradiation. Nat Genet. 2004 Aug;36(8):906-12. Epub 2004 Jul 25. PMID:15273685 doi:https://dx.doi.org/10.1038/ng1396
↑ Schumacher B, Hanazawa M, Lee MH, Nayak S, Volkmann K, Hofmann ER, Hengartner M, Schedl T, Gartner A. Translational repression of C. elegans p53 by GLD-1 regulates DNA damage-induced apoptosis. Cell. 2005 Feb 11;120(3):357-68. PMID:15707894 doi:https://dx.doi.org/10.1016/j.cell.2004.12.009
↑ Schumacher B, Schertel C, Wittenburg N, Tuck S, Mitani S, Gartner A, Conradt B, Shaham S. C. elegans ced-13 can promote apoptosis and is induced in response to DNA damage. Cell Death Differ. 2005 Feb;12(2):153-61. PMID:15605074 doi:https://dx.doi.org/10.1038/sj.cdd.4401539
↑ Garcia-Muse T, Boulton SJ. Distinct modes of ATR activation after replication stress and DNA double-strand breaks in Caenorhabditis elegans. EMBO J. 2005 Dec 21;24(24):4345-55. Epub 2005 Dec 1. PMID:16319925 doi:https://dx.doi.org/7600896
↑ Quevedo C, Kaplan DR, Derry WB. AKT-1 regulates DNA-damage-induced germline apoptosis in C. elegans. Curr Biol. 2007 Feb 6;17(3):286-92. PMID:17276923 doi:https://dx.doi.org/10.1016/j.cub.2006.12.038
↑ Derry WB, Bierings R, van Iersel M, Satkunendran T, Reinke V, Rothman JH. Regulation of developmental rate and germ cell proliferation in Caenorhabditis elegans by the p53 gene network. Cell Death Differ. 2007 Apr;14(4):662-70. Epub 2006 Dec 22. PMID:17186023 doi:https://dx.doi.org/10.1038/sj.cdd.4402075
↑ Stergiou L, Doukoumetzidis K, Sendoel A, Hengartner MO. The nucleotide excision repair pathway is required for UV-C-induced apoptosis in Caenorhabditis elegans. Cell Death Differ. 2007 Jun;14(6):1129-38. Epub 2007 Mar 9. PMID:17347667 doi:https://dx.doi.org/10.1038/sj.cdd.4402115
↑ Arum O, Johnson TE. Reduced expression of the Caenorhabditis elegans p53 ortholog cep-1 results in increased longevity. J Gerontol A Biol Sci Med Sci. 2007 Sep;62(9):951-9. PMID:17895432
↑ Greiss S, Schumacher B, Grandien K, Rothblatt J, Gartner A. Transcriptional profiling in C. elegans suggests DNA damage dependent apoptosis as an ancient function of the p53 family. BMC Genomics. 2008 Jul 15;9:334. doi: 10.1186/1471-2164-9-334. PMID:18627611 doi:https://dx.doi.org/10.1186/1471-2164-9-334
↑ Masse I, Molin L, Mouchiroud L, Vanhems P, Palladino F, Billaud M, Solari F. A novel role for the SMG-1 kinase in lifespan and oxidative stress resistance in Caenorhabditis elegans. PLoS One. 2008 Oct 6;3(10):e3354. doi: 10.1371/journal.pone.0003354. PMID:18836529 doi:https://dx.doi.org/10.1371/journal.pone.0003354
↑ Luo J, Shah S, Riabowol K, Mains PE. The Caenorhabditis elegans ing-3 gene regulates ionizing radiation-induced germ-cell apoptosis in a p53-associated pathway. Genetics. 2009 Feb;181(2):473-82. Epub 2008 Nov 17. PMID:19015549 doi:https://dx.doi.org/genetics.107.080515
↑ Ou HD, Lohr F, Vogel V, Mantele W, Dotsch V. Structural evolution of C-terminal domains in the p53 family. EMBO J. 2007 Jul 25;26(14):3463-73. Epub 2007 Jun 21. PMID:17581633 doi:https://dx.doi.org/7601764

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Schumacher B, Hofmann K, Boulton S, Gartner A. The C. elegans homolog of the p53 tumor suppressor is required for DNA damage-induced apoptosis. Curr Biol. 2001 Oct 30;11(21):1722-7. PMID:11696333

[2] Derry WB, Putzke AP, Rothman JH. Caenorhabditis elegans p53: role in apoptosis, meiosis, and stress resistance. Science. 2001 Oct 19;294(5542):591-5. Epub 2001 Sep 13. PMID:11557844 doi:https://dx.doi.org/10.1126/science.1065486

[3] Hofmann ER, Milstein S, Boulton SJ, Ye M, Hofmann JJ, Stergiou L, Gartner A, Vidal M, Hengartner MO. Caenorhabditis elegans HUS-1 is a DNA damage checkpoint protein required for genome stability and EGL-1-mediated apoptosis. Curr Biol. 2002 Nov 19;12(22):1908-18. PMID:12445383

[4] Deng X, Hofmann ER, Villanueva A, Hobert O, Capodieci P, Veach DR, Yin X, Campodonico L, Glekas A, Cordon-Cardo C, Clarkson B, Bornmann WG, Fuks Z, Hengartner MO, Kolesnick R. Caenorhabditis elegans ABL-1 antagonizes p53-mediated germline apoptosis after ionizing irradiation. Nat Genet. 2004 Aug;36(8):906-12. Epub 2004 Jul 25. PMID:15273685 doi:https://dx.doi.org/10.1038/ng1396

[5] Schumacher B, Hanazawa M, Lee MH, Nayak S, Volkmann K, Hofmann ER, Hengartner M, Schedl T, Gartner A. Translational repression of C. elegans p53 by GLD-1 regulates DNA damage-induced apoptosis. Cell. 2005 Feb 11;120(3):357-68. PMID:15707894 doi:https://dx.doi.org/10.1016/j.cell.2004.12.009

[6] Schumacher B, Schertel C, Wittenburg N, Tuck S, Mitani S, Gartner A, Conradt B, Shaham S. C. elegans ced-13 can promote apoptosis and is induced in response to DNA damage. Cell Death Differ. 2005 Feb;12(2):153-61. PMID:15605074 doi:https://dx.doi.org/10.1038/sj.cdd.4401539

[7] Garcia-Muse T, Boulton SJ. Distinct modes of ATR activation after replication stress and DNA double-strand breaks in Caenorhabditis elegans. EMBO J. 2005 Dec 21;24(24):4345-55. Epub 2005 Dec 1. PMID:16319925 doi:https://dx.doi.org/7600896

[8] Quevedo C, Kaplan DR, Derry WB. AKT-1 regulates DNA-damage-induced germline apoptosis in C. elegans. Curr Biol. 2007 Feb 6;17(3):286-92. PMID:17276923 doi:https://dx.doi.org/10.1016/j.cub.2006.12.038

[9] Derry WB, Bierings R, van Iersel M, Satkunendran T, Reinke V, Rothman JH. Regulation of developmental rate and germ cell proliferation in Caenorhabditis elegans by the p53 gene network. Cell Death Differ. 2007 Apr;14(4):662-70. Epub 2006 Dec 22. PMID:17186023 doi:https://dx.doi.org/10.1038/sj.cdd.4402075

[10] Stergiou L, Doukoumetzidis K, Sendoel A, Hengartner MO. The nucleotide excision repair pathway is required for UV-C-induced apoptosis in Caenorhabditis elegans. Cell Death Differ. 2007 Jun;14(6):1129-38. Epub 2007 Mar 9. PMID:17347667 doi:https://dx.doi.org/10.1038/sj.cdd.4402115

[11] Arum O, Johnson TE. Reduced expression of the Caenorhabditis elegans p53 ortholog cep-1 results in increased longevity. J Gerontol A Biol Sci Med Sci. 2007 Sep;62(9):951-9. PMID:17895432

[12] Greiss S, Schumacher B, Grandien K, Rothblatt J, Gartner A. Transcriptional profiling in C. elegans suggests DNA damage dependent apoptosis as an ancient function of the p53 family. BMC Genomics. 2008 Jul 15;9:334. doi: 10.1186/1471-2164-9-334. PMID:18627611 doi:https://dx.doi.org/10.1186/1471-2164-9-334

[13] Masse I, Molin L, Mouchiroud L, Vanhems P, Palladino F, Billaud M, Solari F. A novel role for the SMG-1 kinase in lifespan and oxidative stress resistance in Caenorhabditis elegans. PLoS One. 2008 Oct 6;3(10):e3354. doi: 10.1371/journal.pone.0003354. PMID:18836529 doi:https://dx.doi.org/10.1371/journal.pone.0003354

[14] Luo J, Shah S, Riabowol K, Mains PE. The Caenorhabditis elegans ing-3 gene regulates ionizing radiation-induced germ-cell apoptosis in a p53-associated pathway. Genetics. 2009 Feb;181(2):473-82. Epub 2008 Nov 17. PMID:19015549 doi:https://dx.doi.org/genetics.107.080515

[15] Ou HD, Lohr F, Vogel V, Mantele W, Dotsch V. Structural evolution of C-terminal domains in the p53 family. EMBO J. 2007 Jul 25;26(14):3463-73. Epub 2007 Jun 21. PMID:17581633 doi:https://dx.doi.org/7601764

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@@ Line 1: / Line 1: @@
 ==Solution structure of the oligomerization domain in CEP-1==
-<StructureSection load='2rp5' size='340' side='right' caption='[[2rp5]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='2rp5' size='340' side='right'caption='[[2rp5]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2rp5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RP5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RP5 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2rp5]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RP5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2RP5 FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2rp4|2rp4]]</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">cep-1, F52B5.5, F52B5.5a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6239 Caenorhabditis elegans])</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=2rp5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rp5 OCA], [https://pdbe.org/2rp5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2rp5 RCSB], [https://www.ebi.ac.uk/pdbsum/2rp5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2rp5 ProSAT]</span></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=2rp5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2rp5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2rp5 RCSB], [http://www.ebi.ac.uk/pdbsum/2rp5 PDBsum]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/CEP1_CAEEL CEP1_CAEEL]] Transcriptional activator that binds the same DNA consensus sequence as p53. Has a role in normal development to ensure proper meiotic chromosome segregation. Promotes apoptosis under conditions of cellular and genotoxic stress in response to DNA damage, hypoxia, or starvation. However, not required for DNA repair in response to UV-C or to regulate cell-cycle progression. Required for induction of ced-13 in response to DNA damage. Regulates germline proliferation by activating phg-1.<ref>PMID:11696333</ref> <ref>PMID:11557844</ref> <ref>PMID:12445383</ref> <ref>PMID:15273685</ref> <ref>PMID:15707894</ref> <ref>PMID:15605074</ref> <ref>PMID:16319925</ref> <ref>PMID:17276923</ref> <ref>PMID:17186023</ref> <ref>PMID:17347667</ref> <ref>PMID:17895432</ref> <ref>PMID:18627611</ref> <ref>PMID:18836529</ref> <ref>PMID:19015549</ref>
+[https://www.uniprot.org/uniprot/CEP1_CAEEL CEP1_CAEEL] Transcriptional activator that binds the same DNA consensus sequence as p53. Has a role in normal development to ensure proper meiotic chromosome segregation. Promotes apoptosis under conditions of cellular and genotoxic stress in response to DNA damage, hypoxia, or starvation. However, not required for DNA repair in response to UV-C or to regulate cell-cycle progression. Required for induction of ced-13 in response to DNA damage. Regulates germline proliferation by activating phg-1.<ref>PMID:11696333</ref> <ref>PMID:11557844</ref> <ref>PMID:12445383</ref> <ref>PMID:15273685</ref> <ref>PMID:15707894</ref> <ref>PMID:15605074</ref> <ref>PMID:16319925</ref> <ref>PMID:17276923</ref> <ref>PMID:17186023</ref> <ref>PMID:17347667</ref> <ref>PMID:17895432</ref> <ref>PMID:18627611</ref> <ref>PMID:18836529</ref> <ref>PMID:19015549</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 17: / Line 17: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 2rp5" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
@@ Line 22: / Line 23: @@
 </StructureSection>
 [[Category: Caenorhabditis elegans]]
-[[Category: Doetsch, V]]
+[[Category: Large Structures]]
-[[Category: Ou, H D]]
+[[Category: Doetsch V]]
-[[Category: Cep-1]]
+[[Category: Ou HD]]
-[[Category: Oligomerization domain]]
-[[Category: P53]]
-[[Category: Sam domain]]
-[[Category: Transcription]]

2rp5: Difference between revisions

Latest revision as of 12:54, 20 December 2023

Solution structure of the oligomerization domain in CEP-1

Structural highlights

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Publication Abstract from PubMed

References

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