5oun: Difference between revisions

Latest revision as of 06:04, 19 June 2024

NMR solution structure of the external DII domain of Rvb2 from Saccharomyces cerevisiae

Structural highlights

5oun is a 1 chain structure with sequence from Saccharomyces cerevisiae. 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

RUVB2_YEAST DNA helicase which participates in several chromatin remodeling complexes, including the SWR1 and the INO80 complexes. The SWR1 complex mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling. The INO80 complex remodels chromatin by shifting nucleosomes. Its ability to induce transcription of some phosphate-responsive genes is modulated by inositol polyphosphates. The INO80 complex is involved in DNA repair by associating to 'Ser-129' phosphorylated H2A histones as a response to DNA damage. During transcription may recruit SPT15/TBP to the TATA-boxes of involved genes. Required for box C/D and box H/ACA snoRNA accumulation and involved in pre-rRNA processing.^[1] ^[2] ^[3] ^[4] ^[5] ^[6] ^[7] ^[8] ^[9]

Publication Abstract from PubMed

We report the nearly complete (1)H, (15)N and (13)C resonance assignment and the solution structure of the external DII domain of the yeast Rvb2 protein, a member of the AAA+ATPase superfamily.

NMR assignment and solution structure of the external DII domain of the yeast Rvb2 protein.,Bragantini B, Rouillon C, Charpentier B, Manival X, Quinternet M Biomol NMR Assign. 2018 Mar 22. pii: 10.1007/s12104-018-9816-5. doi:, 10.1007/s12104-018-9816-5. PMID:29569106^[10]

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

References

↑ Lim CR, Kimata Y, Ohdate H, Kokubo T, Kikuchi N, Horigome T, Kohno K. The Saccharomyces cerevisiae RuvB-like protein, Tih2p, is required for cell cycle progression and RNA polymerase II-directed transcription. J Biol Chem. 2000 Jul 21;275(29):22409-17. PMID:10787406 doi:https://dx.doi.org/10.1074/jbc.M001031200
↑ Shen X, Mizuguchi G, Hamiche A, Wu C. A chromatin remodelling complex involved in transcription and DNA processing. Nature. 2000 Aug 3;406(6795):541-4. PMID:10952318 doi:https://dx.doi.org/10.1038/35020123
↑ Jonsson ZO, Dhar SK, Narlikar GJ, Auty R, Wagle N, Pellman D, Pratt RE, Kingston R, Dutta A. Rvb1p and Rvb2p are essential components of a chromatin remodeling complex that regulates transcription of over 5% of yeast genes. J Biol Chem. 2001 May 11;276(19):16279-88. Epub 2001 Feb 5. PMID:11278922 doi:https://dx.doi.org/10.1074/jbc.M011523200
↑ King TH, Decatur WA, Bertrand E, Maxwell ES, Fournier MJ. A well-connected and conserved nucleoplasmic helicase is required for production of box C/D and H/ACA snoRNAs and localization of snoRNP proteins. Mol Cell Biol. 2001 Nov;21(22):7731-46. PMID:11604509 doi:https://dx.doi.org/10.1128/MCB.21.22.7731-7746.2001
↑ Ohdate H, Lim CR, Kokubo T, Matsubara K, Kimata Y, Kohno K. Impairment of the DNA binding activity of the TATA-binding protein renders the transcriptional function of Rvb2p/Tih2p, the yeast RuvB-like protein, essential for cell growth. J Biol Chem. 2003 Apr 25;278(17):14647-56. Epub 2003 Feb 6. PMID:12576485 doi:https://dx.doi.org/10.1074/jbc.M213220200
↑ Mizuguchi G, Shen X, Landry J, Wu WH, Sen S, Wu C. ATP-driven exchange of histone H2AZ variant catalyzed by SWR1 chromatin remodeling complex. Science. 2004 Jan 16;303(5656):343-8. Epub 2003 Nov 26. PMID:14645854 doi:10.1126/science.1090701
↑ Krogan NJ, Keogh MC, Datta N, Sawa C, Ryan OW, Ding H, Haw RA, Pootoolal J, Tong A, Canadien V, Richards DP, Wu X, Emili A, Hughes TR, Buratowski S, Greenblatt JF. A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1. Mol Cell. 2003 Dec;12(6):1565-76. PMID:14690608
↑ Kobor MS, Venkatasubrahmanyam S, Meneghini MD, Gin JW, Jennings JL, Link AJ, Madhani HD, Rine J. A protein complex containing the conserved Swi2/Snf2-related ATPase Swr1p deposits histone variant H2A.Z into euchromatin. PLoS Biol. 2004 May;2(5):E131. Epub 2004 Mar 23. PMID:15045029 doi:10.1371/journal.pbio.0020131
↑ Jonsson ZO, Jha S, Wohlschlegel JA, Dutta A. Rvb1p/Rvb2p recruit Arp5p and assemble a functional Ino80 chromatin remodeling complex. Mol Cell. 2004 Nov 5;16(3):465-77. PMID:15525518 doi:https://dx.doi.org/S1097276504005854
↑ Bragantini B, Rouillon C, Charpentier B, Manival X, Quinternet M. NMR assignment and solution structure of the external DII domain of the yeast Rvb2 protein. Biomol NMR Assign. 2018 Mar 22. pii: 10.1007/s12104-018-9816-5. doi:, 10.1007/s12104-018-9816-5. PMID:29569106 doi:https://dx.doi.org/10.1007/s12104-018-9816-5

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Lim CR, Kimata Y, Ohdate H, Kokubo T, Kikuchi N, Horigome T, Kohno K. The Saccharomyces cerevisiae RuvB-like protein, Tih2p, is required for cell cycle progression and RNA polymerase II-directed transcription. J Biol Chem. 2000 Jul 21;275(29):22409-17. PMID:10787406 doi:https://dx.doi.org/10.1074/jbc.M001031200

[2] Shen X, Mizuguchi G, Hamiche A, Wu C. A chromatin remodelling complex involved in transcription and DNA processing. Nature. 2000 Aug 3;406(6795):541-4. PMID:10952318 doi:https://dx.doi.org/10.1038/35020123

[3] Jonsson ZO, Dhar SK, Narlikar GJ, Auty R, Wagle N, Pellman D, Pratt RE, Kingston R, Dutta A. Rvb1p and Rvb2p are essential components of a chromatin remodeling complex that regulates transcription of over 5% of yeast genes. J Biol Chem. 2001 May 11;276(19):16279-88. Epub 2001 Feb 5. PMID:11278922 doi:https://dx.doi.org/10.1074/jbc.M011523200

[4] King TH, Decatur WA, Bertrand E, Maxwell ES, Fournier MJ. A well-connected and conserved nucleoplasmic helicase is required for production of box C/D and H/ACA snoRNAs and localization of snoRNP proteins. Mol Cell Biol. 2001 Nov;21(22):7731-46. PMID:11604509 doi:https://dx.doi.org/10.1128/MCB.21.22.7731-7746.2001

[5] Ohdate H, Lim CR, Kokubo T, Matsubara K, Kimata Y, Kohno K. Impairment of the DNA binding activity of the TATA-binding protein renders the transcriptional function of Rvb2p/Tih2p, the yeast RuvB-like protein, essential for cell growth. J Biol Chem. 2003 Apr 25;278(17):14647-56. Epub 2003 Feb 6. PMID:12576485 doi:https://dx.doi.org/10.1074/jbc.M213220200

[6] Mizuguchi G, Shen X, Landry J, Wu WH, Sen S, Wu C. ATP-driven exchange of histone H2AZ variant catalyzed by SWR1 chromatin remodeling complex. Science. 2004 Jan 16;303(5656):343-8. Epub 2003 Nov 26. PMID:14645854 doi:10.1126/science.1090701

[7] Krogan NJ, Keogh MC, Datta N, Sawa C, Ryan OW, Ding H, Haw RA, Pootoolal J, Tong A, Canadien V, Richards DP, Wu X, Emili A, Hughes TR, Buratowski S, Greenblatt JF. A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1. Mol Cell. 2003 Dec;12(6):1565-76. PMID:14690608

[8] Kobor MS, Venkatasubrahmanyam S, Meneghini MD, Gin JW, Jennings JL, Link AJ, Madhani HD, Rine J. A protein complex containing the conserved Swi2/Snf2-related ATPase Swr1p deposits histone variant H2A.Z into euchromatin. PLoS Biol. 2004 May;2(5):E131. Epub 2004 Mar 23. PMID:15045029 doi:10.1371/journal.pbio.0020131

[9] Jonsson ZO, Jha S, Wohlschlegel JA, Dutta A. Rvb1p/Rvb2p recruit Arp5p and assemble a functional Ino80 chromatin remodeling complex. Mol Cell. 2004 Nov 5;16(3):465-77. PMID:15525518 doi:https://dx.doi.org/S1097276504005854

[10] Bragantini B, Rouillon C, Charpentier B, Manival X, Quinternet M. NMR assignment and solution structure of the external DII domain of the yeast Rvb2 protein. Biomol NMR Assign. 2018 Mar 22. pii: 10.1007/s12104-018-9816-5. doi:, 10.1007/s12104-018-9816-5. PMID:29569106 doi:https://dx.doi.org/10.1007/s12104-018-9816-5

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@@ Line 4: / Line 4: @@
 == Structural highlights ==
 <table><tr><td colspan='2'>[[5oun]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OUN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OUN FirstGlance]. <br>
-</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=5oun FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oun OCA], [https://pdbe.org/5oun PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5oun RCSB], [https://www.ebi.ac.uk/pdbsum/5oun PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5oun ProSAT]</span></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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5oun FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oun OCA], [https://pdbe.org/5oun PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5oun RCSB], [https://www.ebi.ac.uk/pdbsum/5oun PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5oun ProSAT]</span></td></tr>
 </table>
 == Function ==

5oun: Difference between revisions

Latest revision as of 06:04, 19 June 2024

NMR solution structure of the external DII domain of Rvb2 from Saccharomyces cerevisiae

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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