This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

5oap

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Solution NMR structure of DREB2A(255-272) bound to RCD1-RST

Structural highlights

5oap is a 1 chain structure with sequence from Arabidopsis thaliana. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

DRE2A_ARATH Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]CCGAC-3' (PubMed:11798174). Binding to the C-repeat/DRE element mediates high salinity- and dehydration-inducible transcription (PubMed:11798174). Promotes the expression of heat stress-inducible genes by contributing to the formation of a heat stress-specific transcriptional complex with NF-Y subunits (e.g. DPB3-1, NF-YA2 and NF-YB3) at the promoter of target genes, thus promoting heat tolerance (PubMed:25490919).^[1] ^[2]

Publication Abstract from PubMed

Communication within cells relies on a few protein nodes called hubs, which organize vast interactomes with many partners. Frequently, hub proteins are intrinsically disordered conferring multi-specificity and dynamic communication. Conversely, folded hub proteins may organize networks using disordered partners. In this work, the structure of the RST domain, a unique folded hub, is solved by nuclear magnetic resonance spectroscopy and small-angle X-ray scattering, and its complex with a region of the transcription factor DREB2A is provided through data-driven HADDOCK modeling and mutagenesis analysis. The RST fold is unique, but similar structures are identified in the PAH (paired amphipathic helix), TAFH (TATA-box-associated factor homology), and NCBD (nuclear coactivator binding domain) domains. We designate them as a group the alphaalpha hubs, as they share an alphaalpha-hairpin super-secondary motif, which serves as an organizing platform for malleable helices of varying topology. This allows for partner adaptation, exclusion, and selection. Our findings provide valuable insights into structural features enabling signaling fidelity.

Structure of Radical-Induced Cell Death1 Hub Domain Reveals a Common alphaalpha-Scaffold for Disorder in Transcriptional Networks.,Bugge K, Staby L, Kemplen KR, O'Shea C, Bendsen SK, Jensen MK, Olsen JG, Skriver K, Kragelund BB Structure. 2018 Apr 12. pii: S0969-2126(18)30094-7. doi:, 10.1016/j.str.2018.03.013. PMID:29657132^[3]

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

References

↑ Sakuma Y, Liu Q, Dubouzet JG, Abe H, Shinozaki K, Yamaguchi-Shinozaki K. DNA-binding specificity of the ERF/AP2 domain of Arabidopsis DREBs, transcription Biochem Biophys Res Commun. 2002 Jan 25;290(3):998-1009. PMID:11798174 doi:10.1006/bbrc.2001.6299
↑ Sato H, Mizoi J, Tanaka H, Maruyama K, Qin F, Osakabe Y, Morimoto K, Ohori T, Kusakabe K, Nagata M, Shinozaki K, Yamaguchi-Shinozaki K. Arabidopsis DPB3-1, a DREB2A interactor, specifically enhances heat stress-induced gene expression by forming a heat stress-specific transcriptional complex with NF-Y subunits. Plant Cell. 2014 Dec;26(12):4954-73. PMID:25490919 doi:10.1105/tpc.114.132928
↑ Bugge K, Staby L, Kemplen KR, O'Shea C, Bendsen SK, Jensen MK, Olsen JG, Skriver K, Kragelund BB. Structure of Radical-Induced Cell Death1 Hub Domain Reveals a Common alphaalpha-Scaffold for Disorder in Transcriptional Networks. Structure. 2018 Apr 12. pii: S0969-2126(18)30094-7. doi:, 10.1016/j.str.2018.03.013. PMID:29657132 doi:http://dx.doi.org/10.1016/j.str.2018.03.013

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/5oap"

@@ Line 1: / Line 1: @@
 ==Solution NMR structure of DREB2A(255-272) bound to RCD1-RST==
-<StructureSection load='5oap' size='340' side='right'caption='[[5oap]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='5oap' size='340' side='right'caption='[[5oap]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5oap]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OAP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OAP FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5oap]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OAP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OAP FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">AXX17_At5g04900 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>
+</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=5oap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oap OCA], [https://pdbe.org/5oap PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5oap RCSB], [https://www.ebi.ac.uk/pdbsum/5oap PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5oap 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=5oap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oap OCA], [http://pdbe.org/5oap PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5oap RCSB], [http://www.ebi.ac.uk/pdbsum/5oap PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5oap ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/DRE2A_ARATH DRE2A_ARATH] Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]CCGAC-3' (PubMed:11798174). Binding to the C-repeat/DRE element mediates high salinity- and dehydration-inducible transcription (PubMed:11798174). Promotes the expression of heat stress-inducible genes by contributing to the formation of a heat stress-specific transcriptional complex with NF-Y subunits (e.g. DPB3-1, NF-YA2 and NF-YB3) at the promoter of target genes, thus promoting heat tolerance (PubMed:25490919).<ref>PMID:11798174</ref> <ref>PMID:25490919</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 20: / Line 21: @@
 __TOC__
 </StructureSection>
-[[Category: Arath]]
+[[Category: Arabidopsis thaliana]]
 [[Category: Large Structures]]
-[[Category: Bugge, K]]
+[[Category: Bugge K]]
-[[Category: Kragelund, B B]]
+[[Category: Kragelund BB]]
-[[Category: Skriver, K]]
+[[Category: Skriver K]]
-[[Category: Staby, L]]
+[[Category: Staby L]]
-[[Category: Folding upon binding]]
-[[Category: Idp]]
-[[Category: Plant protein]]
-[[Category: Transcription]]
-[[Category: Transcription factor]]

5oap

From Proteopedia

Current revision

Solution NMR structure of DREB2A(255-272) bound to RCD1-RST

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox