2dis: Difference between revisions

Revision as of 11:39, 22 May 2024

Solution structure of the RRM domain of unnamed protein product

Structural highlights

2dis is a 1 chain structure with sequence from Homo sapiens. 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, TOPSAN

Function

RBM47_HUMAN Single-stranded RNA-binding protein that functions in a variety of RNA processes, including alternative splicing, RNA stabilization, and RNA editing (PubMed:24038582, PubMed:24916387, PubMed:27050523, PubMed:30844405, PubMed:31358901, PubMed:34160127). Functions as an enzyme-substrate adapter for the cytidine deaminase APOBEC1. With APOBEC1 forms an mRNA editing complex involved into cytidine to uridine editing of a variety of mRNA molecules (PubMed:24038582, PubMed:24916387, PubMed:30844405). Through the binding of their 3'UTR, also stabilizes a variety of mRNAs and regulates the expression of genes such as the interferon alpha/beta receptor and interleukin-10 (PubMed:34160127). Also involved in the alternative splicing of several genes including TJP1. Binds the pre-mRNA (U)GCAUG consensus sequences in downstream intronic regions of alternative exons, regulating their exclusion and inclusion into mRNAs (PubMed:31358901, PubMed:27050523). Independently of its RNA-binding activity, could negatively regulate MAVS by promoting its lysosomal degradation (By similarity).[UniProtKB:A0A8M1NHK4]^[1] ^[2] ^[3] ^[4] ^[5] ^[6]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

References

↑ Guan R, El-Rass S, Spillane D, Lam S, Wang Y, Wu J, Chen Z, Wang A, Jia Z, Keating A, Hu J, Wen XY. rbm47, a novel RNA binding protein, regulates zebrafish head development. Dev Dyn. 2013 Dec;242(12):1395-404. PMID:24038582 doi:10.1002/dvdy.24039
↑ Fossat N, Tourle K, Radziewic T, Barratt K, Liebhold D, Studdert JB, Power M, Jones V, Loebel DA, Tam PP. C to U RNA editing mediated by APOBEC1 requires RNA-binding protein RBM47. EMBO Rep. 2014 Aug;15(8):903-10. PMID:24916387 doi:10.15252/embr.201438450
↑ Cieply B, Park JW, Nakauka-Ddamba A, Bebee TW, Guo Y, Shang X, Lengner CJ, Xing Y, Carstens RP. Multiphasic and Dynamic Changes in Alternative Splicing during Induction of Pluripotency Are Coordinated by Numerous RNA-Binding Proteins. Cell Rep. 2016 Apr 12;15(2):247-55. PMID:27050523 doi:10.1016/j.celrep.2016.03.025
↑ Wolfe AD, Arnold DB, Chen XS. Comparison of RNA Editing Activity of APOBEC1-A1CF and APOBEC1-RBM47 Complexes Reconstituted in HEK293T Cells. J Mol Biol. 2019 Mar 29;431(7):1506-1517. PMID:30844405 doi:10.1016/j.jmb.2019.02.025
↑ Kim YE, Won M, Lee SG, Park C, Song CH, Kim KK. RBM47-regulated alternative splicing of TJP1 promotes actin stress fiber assembly during epithelial-to-mesenchymal transition. Oncogene. 2019 Sep;38(38):6521-6536. PMID:31358901 doi:10.1038/s41388-019-0892-5
↑ Wang K, Huang C, Jiang T, Chen Z, Xue M, Zhang Q, Zhang J, Dai J. RNA-binding protein RBM47 stabilizes IFNAR1 mRNA to potentiate host antiviral activity. EMBO Rep. 2021 Aug 4;22(8):e52205. PMID:34160127 doi:10.15252/embr.202052205

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Guan R, El-Rass S, Spillane D, Lam S, Wang Y, Wu J, Chen Z, Wang A, Jia Z, Keating A, Hu J, Wen XY. rbm47, a novel RNA binding protein, regulates zebrafish head development. Dev Dyn. 2013 Dec;242(12):1395-404. PMID:24038582 doi:10.1002/dvdy.24039

[2] Fossat N, Tourle K, Radziewic T, Barratt K, Liebhold D, Studdert JB, Power M, Jones V, Loebel DA, Tam PP. C to U RNA editing mediated by APOBEC1 requires RNA-binding protein RBM47. EMBO Rep. 2014 Aug;15(8):903-10. PMID:24916387 doi:10.15252/embr.201438450

[3] Cieply B, Park JW, Nakauka-Ddamba A, Bebee TW, Guo Y, Shang X, Lengner CJ, Xing Y, Carstens RP. Multiphasic and Dynamic Changes in Alternative Splicing during Induction of Pluripotency Are Coordinated by Numerous RNA-Binding Proteins. Cell Rep. 2016 Apr 12;15(2):247-55. PMID:27050523 doi:10.1016/j.celrep.2016.03.025

[4] Wolfe AD, Arnold DB, Chen XS. Comparison of RNA Editing Activity of APOBEC1-A1CF and APOBEC1-RBM47 Complexes Reconstituted in HEK293T Cells. J Mol Biol. 2019 Mar 29;431(7):1506-1517. PMID:30844405 doi:10.1016/j.jmb.2019.02.025

[5] Kim YE, Won M, Lee SG, Park C, Song CH, Kim KK. RBM47-regulated alternative splicing of TJP1 promotes actin stress fiber assembly during epithelial-to-mesenchymal transition. Oncogene. 2019 Sep;38(38):6521-6536. PMID:31358901 doi:10.1038/s41388-019-0892-5

[6] Wang K, Huang C, Jiang T, Chen Z, Xue M, Zhang Q, Zhang J, Dai J. RNA-binding protein RBM47 stabilizes IFNAR1 mRNA to potentiate host antiviral activity. EMBO Rep. 2021 Aug 4;22(8):e52205. PMID:34160127 doi:10.15252/embr.202052205

[1]

[2]

[3]

[4]

[5]

[6]

@@ Line 1: / Line 1: @@
 ==Solution structure of the RRM domain of unnamed protein product==
-<StructureSection load='2dis' size='340' side='right'caption='[[2dis]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='2dis' size='340' side='right'caption='[[2dis]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2dis]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DIS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DIS FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2dis]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DIS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DIS 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=2dis FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dis OCA], [https://pdbe.org/2dis PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dis RCSB], [https://www.ebi.ac.uk/pdbsum/2dis PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dis ProSAT], [https://www.topsan.org/Proteins/RSGI/2dis TOPSAN]</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=2dis FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dis OCA], [https://pdbe.org/2dis PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dis RCSB], [https://www.ebi.ac.uk/pdbsum/2dis PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dis ProSAT], [https://www.topsan.org/Proteins/RSGI/2dis TOPSAN]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/RBM47_HUMAN RBM47_HUMAN] Single-stranded RNA-binding protein that functions in a variety of RNA processes, including alternative splicing, RNA stabilization, and RNA editing (PubMed:24038582, PubMed:24916387, PubMed:27050523, PubMed:30844405, PubMed:31358901, PubMed:34160127). Functions as an enzyme-substrate adapter for the cytidine deaminase APOBEC1. With APOBEC1 forms an mRNA editing complex involved into cytidine to uridine editing of a variety of mRNA molecules (PubMed:24038582, PubMed:24916387, PubMed:30844405). Through the binding of their 3'UTR, also stabilizes a variety of mRNAs and regulates the expression of genes such as the interferon alpha/beta receptor and interleukin-10 (PubMed:34160127). Also involved in the alternative splicing of several genes including TJP1. Binds the pre-mRNA (U)GCAUG consensus sequences in downstream intronic regions of alternative exons, regulating their exclusion and inclusion into mRNAs (PubMed:31358901, PubMed:27050523). Independently of its RNA-binding activity, could negatively regulate MAVS by promoting its lysosomal degradation (By similarity).[UniProtKB:A0A8M1NHK4]<ref>PMID:24038582</ref> <ref>PMID:24916387</ref> <ref>PMID:27050523</ref> <ref>PMID:30844405</ref> <ref>PMID:31358901</ref> <ref>PMID:34160127</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 16: / Line 19: @@
 </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2dis ConSurf].
 <div style="clear:both"></div>
+== References ==
+<references/>
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
 [[Category: Large Structures]]
-[[Category: Dang, W]]
+[[Category: Dang W]]
-[[Category: Inoue, M]]
+[[Category: Inoue M]]
-[[Category: Kigawa, T]]
+[[Category: Kigawa T]]
-[[Category: Muto, Y]]
+[[Category: Muto Y]]
-[[Category: Structural genomic]]
+[[Category: Shirouzu M]]
-[[Category: Shirouzu, M]]
+[[Category: Terada T]]
-[[Category: Terada, T]]
+[[Category: Yokoyama S]]
-[[Category: Yokoyama, S]]
-[[Category: National project on protein structural and functional analyse]]
-[[Category: Nppsfa]]
-[[Category: Rna binding protein]]
-[[Category: Rrm domain]]
-[[Category: Rsgi]]

2dis: Difference between revisions

Revision as of 11:39, 22 May 2024

Solution structure of the RRM domain of unnamed protein product

Structural highlights

Function

Evolutionary Conservation

References

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