6dd7

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of plant UVB photoreceptor UVR8 from in situ serial Laue diffraction

Structural highlights

6dd7 is a 4 chain structure with sequence from Arabidopsis thaliana. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

UVR8_ARATH UV-B specific signaling component that acts as UV-B photoreceptor and plays a key role in establishing UV-protective responses in plants. Upon UV-B irradiation, UVR8 undergoes an immediate switch from homodimer to monomer, accumulates in the nucleus, interacts with the photomorphogenic repressor COP1 and regulates the expression of the transcription factor HY5 by associating with chromatin (through histone H2B binding) in the HY5 promoter region. UVR8 is involved in controlling aspects of leaf growth and morphogenesis in response to UV-B, is required for normal progression of endocycle and has a regulatory role in stomatal differentiation. Is required for plant circadian clock response to photomorphogenic UV-B light, partly through the transcriptional activation of responsive clock genes. Promotes photosynthetic efficiency at elevated levels of UV-B. Plays a role in mediating the effects of UV-B radiation on pathogen resistance by controlling the expression of the sinapate biosynthetic pathway. The two tryptophans, Trp-285 and Trp-233, serve collectively as the UV-B chromophore.^[1] ^[2] ^[3] ^[4] ^[5] ^[6] ^[7] ^[8] ^[9] ^[10] ^[11] ^[12]

Publication Abstract from PubMed

Recent developments in serial crystallography at X-ray free electron lasers (XFELs) and synchrotrons have been driven by two scientific goals in structural biology - first, static structure determination from nano or microcrystals of membrane proteins and large complexes that are difficult for conventional cryocrystallography, and second, direct observations of transient structural species in biochemical reactions at near atomic resolution. Since room-temperature diffraction experiments naturally demand a large quantity of purified protein, sample economy is critically important for all steps of serial crystallography from crystallization, crystal delivery to data collection. Here we report the development and applications of "crystal-on-crystal" devices to facilitate large-scale in situ serial diffraction experiments on protein crystals of all sizes - large, small, or microscopic. We show that the monocrystalline quartz as a substrate material prevents vapor loss during crystallization and significantly reduces background X-ray scattering. These devices can be readily adopted at XFEL and synchrotron beamlines, which enable efficient delivery of hundreds to millions of crystals to the X-ray beam, with an overall protein consumption per dataset comparable to that of cryocrystallography.

Crystal-on-crystal chips for in situ serial diffraction at room temperature.,Ren Z, Ayhan M, Bandara S, Bowatte K, Kumarapperuma I, Gunawardana S, Shin H, Wang C, Zeng X, Yang X Lab Chip. 2018 Jun 28. doi: 10.1039/c8lc00489g. PMID:29952383^[13]

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

References

↑ Brown BA, Cloix C, Jiang GH, Kaiserli E, Herzyk P, Kliebenstein DJ, Jenkins GI. A UV-B-specific signaling component orchestrates plant UV protection. Proc Natl Acad Sci U S A. 2005 Dec 13;102(50):18225-30. Epub 2005 Dec 5. PMID:16330762 doi:http://dx.doi.org/10.1073/pnas.0507187102
↑ Kaiserli E, Jenkins GI. UV-B promotes rapid nuclear translocation of the Arabidopsis UV-B specific signaling component UVR8 and activates its function in the nucleus. Plant Cell. 2007 Aug;19(8):2662-73. Epub 2007 Aug 24. PMID:17720867 doi:http://dx.doi.org/10.1105/tpc.107.053330
↑ Brown BA, Jenkins GI. UV-B signaling pathways with different fluence-rate response profiles are distinguished in mature Arabidopsis leaf tissue by requirement for UVR8, HY5, and HYH. Plant Physiol. 2008 Feb;146(2):576-88. Epub 2007 Nov 30. PMID:18055587 doi:http://dx.doi.org/10.1104/pp.107.108456
↑ Favory JJ, Stec A, Gruber H, Rizzini L, Oravecz A, Funk M, Albert A, Cloix C, Jenkins GI, Oakeley EJ, Seidlitz HK, Nagy F, Ulm R. Interaction of COP1 and UVR8 regulates UV-B-induced photomorphogenesis and stress acclimation in Arabidopsis. EMBO J. 2009 Mar 4;28(5):591-601. doi: 10.1038/emboj.2009.4. Epub 2009 Jan 22. PMID:19165148 doi:http://dx.doi.org/10.1038/emboj.2009.4
↑ Wargent JJ, Gegas VC, Jenkins GI, Doonan JH, Paul ND. UVR8 in Arabidopsis thaliana regulates multiple aspects of cellular differentiation during leaf development in response to ultraviolet B radiation. New Phytol. 2009;183(2):315-26. doi: 10.1111/j.1469-8137.2009.02855.x. Epub 2009 , Apr 27. PMID:19402876 doi:http://dx.doi.org/10.1111/j.1469-8137.2009.02855.x
↑ Gruber H, Heijde M, Heller W, Albert A, Seidlitz HK, Ulm R. Negative feedback regulation of UV-B-induced photomorphogenesis and stress acclimation in Arabidopsis. Proc Natl Acad Sci U S A. 2010 Nov 16;107(46):20132-7. doi:, 10.1073/pnas.0914532107. Epub 2010 Nov 1. PMID:21041653 doi:http://dx.doi.org/10.1073/pnas.0914532107
↑ Feher B, Kozma-Bognar L, Kevei E, Hajdu A, Binkert M, Davis SJ, Schafer E, Ulm R, Nagy F. Functional interaction of the circadian clock and UV RESISTANCE LOCUS 8-controlled UV-B signaling pathways in Arabidopsis thaliana. Plant J. 2011 Jul;67(1):37-48. doi: 10.1111/j.1365-313X.2011.04573.x. Epub 2011, Apr 26. PMID:21395889 doi:http://dx.doi.org/10.1111/j.1365-313X.2011.04573.x
↑ Rizzini L, Favory JJ, Cloix C, Faggionato D, O'Hara A, Kaiserli E, Baumeister R, Schafer E, Nagy F, Jenkins GI, Ulm R. Perception of UV-B by the Arabidopsis UVR8 protein. Science. 2011 Apr 1;332(6025):103-6. doi: 10.1126/science.1200660. PMID:21454788 doi:http://dx.doi.org/10.1126/science.1200660
↑ Demkura PV, Ballare CL. UVR8 mediates UV-B-induced Arabidopsis defense responses against Botrytis cinerea by controlling sinapate accumulation. Mol Plant. 2012 May;5(3):642-52. doi: 10.1093/mp/sss025. Epub 2012 Mar 23. PMID:22447155 doi:http://dx.doi.org/10.1093/mp/sss025
↑ Davey MP, Susanti NI, Wargent JJ, Findlay JE, Paul Quick W, Paul ND, Jenkins GI. The UV-B photoreceptor UVR8 promotes photosynthetic efficiency in Arabidopsis thaliana exposed to elevated levels of UV-B. Photosynth Res. 2012 Dec;114(2):121-31. doi: 10.1007/s11120-012-9785-y. Epub 2012, Nov 19. PMID:23161229 doi:http://dx.doi.org/10.1007/s11120-012-9785-y
↑ O'Hara A, Jenkins GI. In vivo function of tryptophans in the Arabidopsis UV-B photoreceptor UVR8. Plant Cell. 2012 Sep;24(9):3755-66. doi: 10.1105/tpc.112.101451. Epub 2012 Sep, 25. PMID:23012433 doi:http://dx.doi.org/10.1105/tpc.112.101451
↑ Cloix C, Kaiserli E, Heilmann M, Baxter KJ, Brown BA, O'Hara A, Smith BO, Christie JM, Jenkins GI. C-terminal region of the UV-B photoreceptor UVR8 initiates signaling through interaction with the COP1 protein. Proc Natl Acad Sci U S A. 2012 Oct 2;109(40):16366-70. doi:, 10.1073/pnas.1210898109. Epub 2012 Sep 17. PMID:22988111 doi:http://dx.doi.org/10.1073/pnas.1210898109
↑ Ren Z, Ayhan M, Bandara S, Bowatte K, Kumarapperuma I, Gunawardana S, Shin H, Wang C, Zeng X, Yang X. Crystal-on-crystal chips for in situ serial diffraction at room temperature. Lab Chip. 2018 Jun 28. doi: 10.1039/c8lc00489g. PMID:29952383 doi:http://dx.doi.org/10.1039/c8lc00489g

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/6dd7"

Categories: Arabidopsis thaliana | Large Structures | Ren Z

@@ Line 3: / Line 3: @@
 <StructureSection load='6dd7' size='340' side='right'caption='[[6dd7]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6dd7]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DD7 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6dd7]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DD7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DD7 FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">UVR8, At5g63860, MGI19.7 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</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]] 2&#8491;</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=6dd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dd7 OCA], [http://pdbe.org/6dd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dd7 RCSB], [http://www.ebi.ac.uk/pdbsum/6dd7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dd7 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=6dd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dd7 OCA], [https://pdbe.org/6dd7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dd7 RCSB], [https://www.ebi.ac.uk/pdbsum/6dd7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dd7 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/UVR8_ARATH UVR8_ARATH]] UV-B specific signaling component that acts as UV-B photoreceptor and plays a key role in establishing UV-protective responses in plants. Upon UV-B irradiation, UVR8 undergoes an immediate switch from homodimer to monomer, accumulates in the nucleus, interacts with the photomorphogenic repressor COP1 and regulates the expression of the transcription factor HY5 by associating with chromatin (through histone H2B binding) in the HY5 promoter region. UVR8 is involved in controlling aspects of leaf growth and morphogenesis in response to UV-B, is required for normal progression of endocycle and has a regulatory role in stomatal differentiation. Is required for plant circadian clock response to photomorphogenic UV-B light, partly through the transcriptional activation of responsive clock genes. Promotes photosynthetic efficiency at elevated levels of UV-B. Plays a role in mediating the effects of UV-B radiation on pathogen resistance by controlling the expression of the sinapate biosynthetic pathway. The two tryptophans, Trp-285 and Trp-233, serve collectively as the UV-B chromophore.<ref>PMID:16330762</ref> <ref>PMID:17720867</ref> <ref>PMID:18055587</ref> <ref>PMID:19165148</ref> <ref>PMID:19402876</ref> <ref>PMID:21041653</ref> <ref>PMID:21395889</ref> <ref>PMID:21454788</ref> <ref>PMID:22447155</ref> <ref>PMID:23161229</ref> <ref>PMID:23012433</ref> <ref>PMID:22988111</ref>
+[https://www.uniprot.org/uniprot/UVR8_ARATH UVR8_ARATH] UV-B specific signaling component that acts as UV-B photoreceptor and plays a key role in establishing UV-protective responses in plants. Upon UV-B irradiation, UVR8 undergoes an immediate switch from homodimer to monomer, accumulates in the nucleus, interacts with the photomorphogenic repressor COP1 and regulates the expression of the transcription factor HY5 by associating with chromatin (through histone H2B binding) in the HY5 promoter region. UVR8 is involved in controlling aspects of leaf growth and morphogenesis in response to UV-B, is required for normal progression of endocycle and has a regulatory role in stomatal differentiation. Is required for plant circadian clock response to photomorphogenic UV-B light, partly through the transcriptional activation of responsive clock genes. Promotes photosynthetic efficiency at elevated levels of UV-B. Plays a role in mediating the effects of UV-B radiation on pathogen resistance by controlling the expression of the sinapate biosynthetic pathway. The two tryptophans, Trp-285 and Trp-233, serve collectively as the UV-B chromophore.<ref>PMID:16330762</ref> <ref>PMID:17720867</ref> <ref>PMID:18055587</ref> <ref>PMID:19165148</ref> <ref>PMID:19402876</ref> <ref>PMID:21041653</ref> <ref>PMID:21395889</ref> <ref>PMID:21454788</ref> <ref>PMID:22447155</ref> <ref>PMID:23161229</ref> <ref>PMID:23012433</ref> <ref>PMID:22988111</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Arath]]
+[[Category: Arabidopsis thaliana]]
 [[Category: Large Structures]]
-[[Category: Ren, Z]]
+[[Category: Ren Z]]
-[[Category: Gene regulation]]
-[[Category: In situ diffraction]]
-[[Category: Laue diffraction]]
-[[Category: Photoreceptor]]
-[[Category: Serial crystallography]]

6dd7

From Proteopedia

Current revision

Crystal structure of plant UVB photoreceptor UVR8 from in situ serial Laue diffraction

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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