5ngo: Difference between revisions

Revision as of 15:49, 17 May 2017

Crystal structure of the PARP domain of Arabidopsis RADICAL-INDUCED CELL DEATH1

Structural highlights

5ngo is a 8 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RCD1_ARATH] Inactive ADP-ribosyltransferase that functions with SRO1 to regulate oxidative stress, hormonal and developmental responses. Required for embryogenesis, vegetative and reproductive development, and abiotic stress responses. May regulate several stress-responsive genes. Seems to play a larger developmental role than SRO1. Does not bind NAD in vitro.^[1] ^[2] ^[3] ^[4] ^[5] ^[6] ^[7] ^[8] ^[9] ^[10]

References

↑ Belles-Boix E, Babiychuk E, Van Montagu M, Inze D, Kushnir S. CEO1, a new protein from Arabidopsis thaliana, protects yeast against oxidative damage. FEBS Lett. 2000 Sep 29;482(1-2):19-24. PMID:11018516
↑ Overmyer K, Tuominen H, Kettunen R, Betz C, Langebartels C, Sandermann H Jr, Kangasjarvi J. Ozone-sensitive arabidopsis rcd1 mutant reveals opposite roles for ethylene and jasmonate signaling pathways in regulating superoxide-dependent cell death. Plant Cell. 2000 Oct;12(10):1849-62. PMID:11041881
↑ Fujibe T, Saji H, Arakawa K, Yabe N, Takeuchi Y, Yamamoto KT. A methyl viologen-resistant mutant of Arabidopsis, which is allelic to ozone-sensitive rcd1, is tolerant to supplemental ultraviolet-B irradiation. Plant Physiol. 2004 Jan;134(1):275-85. Epub 2003 Dec 4. PMID:14657410 doi:https://dx.doi.org/10.1104/pp.103.033480
↑ Ahlfors R, Lang S, Overmyer K, Jaspers P, Brosche M, Tauriainen A, Kollist H, Tuominen H, Belles-Boix E, Piippo M, Inze D, Palva ET, Kangasjarvi J. Arabidopsis RADICAL-INDUCED CELL DEATH1 belongs to the WWE protein-protein interaction domain protein family and modulates abscisic acid, ethylene, and methyl jasmonate responses. Plant Cell. 2004 Jul;16(7):1925-37. Epub 2004 Jun 18. PMID:15208394 doi:https://dx.doi.org/10.1105/tpc.021832
↑ Overmyer K, Brosche M, Pellinen R, Kuittinen T, Tuominen H, Ahlfors R, Keinanen M, Saarma M, Scheel D, Kangasjarvi J. Ozone-induced programmed cell death in the Arabidopsis radical-induced cell death1 mutant. Plant Physiol. 2005 Mar;137(3):1092-104. Epub 2005 Feb 22. PMID:15728341 doi:https://dx.doi.org/10.1104/pp.104.055681
↑ Fujibe T, Saji H, Watahiki MK, Yamamoto KT. Overexpression of the RADICAL-INDUCED CELL DEATH1 (RCD1) gene of Arabidopsis causes weak rcd1 phenotype with compromised oxidative-stress responses. Biosci Biotechnol Biochem. 2006 Aug;70(8):1827-31. PMID:16926493 doi:https://dx.doi.org/10.1271/bbb.50673
↑ Jaspers P, Blomster T, Brosche M, Salojarvi J, Ahlfors R, Vainonen JP, Reddy RA, Immink R, Angenent G, Turck F, Overmyer K, Kangasjarvi J. Unequally redundant RCD1 and SRO1 mediate stress and developmental responses and interact with transcription factors. Plant J. 2009 Oct;60(2):268-79. doi: 10.1111/j.1365-313X.2009.03951.x. Epub 2009 , Jun 22. PMID:19548978 doi:https://dx.doi.org/10.1111/j.1365-313X.2009.03951.x
↑ Teotia S, Lamb RS. The paralogous genes RADICAL-INDUCED CELL DEATH1 and SIMILAR TO RCD ONE1 have partially redundant functions during Arabidopsis development. Plant Physiol. 2009 Sep;151(1):180-98. doi: 10.1104/pp.109.142786. Epub 2009 Jul , 22. PMID:19625634 doi:https://dx.doi.org/10.1104/pp.109.142786
↑ Jaspers P, Overmyer K, Wrzaczek M, Vainonen JP, Blomster T, Salojarvi J, Reddy RA, Kangasjarvi J. The RST and PARP-like domain containing SRO protein family: analysis of protein structure, function and conservation in land plants. BMC Genomics. 2010 Mar 12;11:170. doi: 10.1186/1471-2164-11-170. PMID:20226034 doi:https://dx.doi.org/10.1186/1471-2164-11-170
↑ Teotia S, Lamb RS. RCD1 and SRO1 are necessary to maintain meristematic fate in Arabidopsis thaliana. J Exp Bot. 2011 Jan;62(3):1271-84. doi: 10.1093/jxb/erq363. Epub 2010 Dec 13. PMID:21172813 doi:https://dx.doi.org/10.1093/jxb/erq363

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Belles-Boix E, Babiychuk E, Van Montagu M, Inze D, Kushnir S. CEO1, a new protein from Arabidopsis thaliana, protects yeast against oxidative damage. FEBS Lett. 2000 Sep 29;482(1-2):19-24. PMID:11018516

[2] Overmyer K, Tuominen H, Kettunen R, Betz C, Langebartels C, Sandermann H Jr, Kangasjarvi J. Ozone-sensitive arabidopsis rcd1 mutant reveals opposite roles for ethylene and jasmonate signaling pathways in regulating superoxide-dependent cell death. Plant Cell. 2000 Oct;12(10):1849-62. PMID:11041881

[3] Fujibe T, Saji H, Arakawa K, Yabe N, Takeuchi Y, Yamamoto KT. A methyl viologen-resistant mutant of Arabidopsis, which is allelic to ozone-sensitive rcd1, is tolerant to supplemental ultraviolet-B irradiation. Plant Physiol. 2004 Jan;134(1):275-85. Epub 2003 Dec 4. PMID:14657410 doi:https://dx.doi.org/10.1104/pp.103.033480

[4] Ahlfors R, Lang S, Overmyer K, Jaspers P, Brosche M, Tauriainen A, Kollist H, Tuominen H, Belles-Boix E, Piippo M, Inze D, Palva ET, Kangasjarvi J. Arabidopsis RADICAL-INDUCED CELL DEATH1 belongs to the WWE protein-protein interaction domain protein family and modulates abscisic acid, ethylene, and methyl jasmonate responses. Plant Cell. 2004 Jul;16(7):1925-37. Epub 2004 Jun 18. PMID:15208394 doi:https://dx.doi.org/10.1105/tpc.021832

[5] Overmyer K, Brosche M, Pellinen R, Kuittinen T, Tuominen H, Ahlfors R, Keinanen M, Saarma M, Scheel D, Kangasjarvi J. Ozone-induced programmed cell death in the Arabidopsis radical-induced cell death1 mutant. Plant Physiol. 2005 Mar;137(3):1092-104. Epub 2005 Feb 22. PMID:15728341 doi:https://dx.doi.org/10.1104/pp.104.055681

[6] Fujibe T, Saji H, Watahiki MK, Yamamoto KT. Overexpression of the RADICAL-INDUCED CELL DEATH1 (RCD1) gene of Arabidopsis causes weak rcd1 phenotype with compromised oxidative-stress responses. Biosci Biotechnol Biochem. 2006 Aug;70(8):1827-31. PMID:16926493 doi:https://dx.doi.org/10.1271/bbb.50673

[7] Jaspers P, Blomster T, Brosche M, Salojarvi J, Ahlfors R, Vainonen JP, Reddy RA, Immink R, Angenent G, Turck F, Overmyer K, Kangasjarvi J. Unequally redundant RCD1 and SRO1 mediate stress and developmental responses and interact with transcription factors. Plant J. 2009 Oct;60(2):268-79. doi: 10.1111/j.1365-313X.2009.03951.x. Epub 2009 , Jun 22. PMID:19548978 doi:https://dx.doi.org/10.1111/j.1365-313X.2009.03951.x

[8] Teotia S, Lamb RS. The paralogous genes RADICAL-INDUCED CELL DEATH1 and SIMILAR TO RCD ONE1 have partially redundant functions during Arabidopsis development. Plant Physiol. 2009 Sep;151(1):180-98. doi: 10.1104/pp.109.142786. Epub 2009 Jul , 22. PMID:19625634 doi:https://dx.doi.org/10.1104/pp.109.142786

[9] Jaspers P, Overmyer K, Wrzaczek M, Vainonen JP, Blomster T, Salojarvi J, Reddy RA, Kangasjarvi J. The RST and PARP-like domain containing SRO protein family: analysis of protein structure, function and conservation in land plants. BMC Genomics. 2010 Mar 12;11:170. doi: 10.1186/1471-2164-11-170. PMID:20226034 doi:https://dx.doi.org/10.1186/1471-2164-11-170

[10] Teotia S, Lamb RS. RCD1 and SRO1 are necessary to maintain meristematic fate in Arabidopsis thaliana. J Exp Bot. 2011 Jan;62(3):1271-84. doi: 10.1093/jxb/erq363. Epub 2010 Dec 13. PMID:21172813 doi:https://dx.doi.org/10.1093/jxb/erq363

[1]

[2]

[3]

[4]

[5]

[6]

[7]

[8]

[9]

[10]

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5ngo is ON HOLD  until Paper Publication
+==Crystal structure of the PARP domain of Arabidopsis RADICAL-INDUCED CELL DEATH1==
+<StructureSection load='5ngo' size='340' side='right' caption='[[5ngo]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
-Authors: Wirthmueller, L., Banfield, M.J.
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5ngo]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NGO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NGO FirstGlance]. <br>
-Description: Crystal structure of the PARP domain of Arabidopsis RADICAL-INDUCED CELL DEATH1
+</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=5ngo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ngo OCA], [http://pdbe.org/5ngo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ngo RCSB], [http://www.ebi.ac.uk/pdbsum/5ngo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ngo ProSAT]</span></td></tr>
-[[Category: Unreleased Structures]]
+</table>
+== Function ==
+[[http://www.uniprot.org/uniprot/RCD1_ARATH RCD1_ARATH]] Inactive ADP-ribosyltransferase that functions with SRO1 to regulate oxidative stress, hormonal and developmental responses. Required for embryogenesis, vegetative and reproductive development, and abiotic stress responses. May regulate several stress-responsive genes. Seems to play a larger developmental role than SRO1. Does not bind NAD in vitro.<ref>PMID:11018516</ref> <ref>PMID:11041881</ref> <ref>PMID:14657410</ref> <ref>PMID:15208394</ref> <ref>PMID:15728341</ref> <ref>PMID:16926493</ref> <ref>PMID:19548978</ref> <ref>PMID:19625634</ref> <ref>PMID:20226034</ref> <ref>PMID:21172813</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Banfield, M J]]
 [[Category: Wirthmueller, L]]
-[[Category: Banfield, M.J]]
+[[Category: Parp]]
+[[Category: Plant protein]]

5ngo: Difference between revisions

Revision as of 15:49, 17 May 2017

Crystal structure of the PARP domain of Arabidopsis RADICAL-INDUCED CELL DEATH1

Structural highlights

Function

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools