2cjk: Difference between revisions

Latest revision as of 05:34, 15 May 2024

Structure of the RNA binding domain of Hrp1 in complex with RNA

Structural highlights

2cjk is a 2 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

HRP1_YEAST RNA-binding protein, which is involved in the polyadenylation-dependent pre-mRNA 3'-end formation and cooperates with the cleavage factor CFIA complex and the cleavage and polyadenylation factor (CPF) complex. May be involved in regulation of poly(A) site selection. Is involved in nonsense-mediated mRNA decay. Seems to bind to an RNA downstream sequence element (DSE) located 3' of a nonsense codon and may mark the transcript for decay.^[1] ^[2] ^[3] ^[4]

Evolutionary Conservation

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

Publication Abstract from PubMed

The recognition of specific signals encoded within the 3'-untranslated region of the newly transcribed mRNA triggers the assembly of a multiprotein machine that modifies its 3'-end. Hrp1 recognises one of such signals, the so-called polyadenylation enhancement element (PEE), promoting the recruitment of other polyadenylation factors in yeast. The molecular bases of this interaction are revealed here by the solution structure of a complex between Hrp1 and an oligonucleotide mimicking the PEE. Six consecutive bases (AUAUAU) are specifically recognised by two RNA-binding domains arranged in tandem. Both protein and RNA undergo significant conformational changes upon complex formation with a concomitant large surface burial of RNA bases. Key aspects of RNA specificity can be explained by the presence of intermolecular aromatic-aromatic contacts and hydrogen bonds. Altogether, the Hrp1-PEE structure represents one of the first steps towards understanding of the assembly of the cleavage and polyadenylation machinery at the atomic level.

Grabbing the message: structural basis of mRNA 3'UTR recognition by Hrp1.,Perez-Canadillas JM EMBO J. 2006 Jul 12;25(13):3167-78. Epub 2006 Jun 22. PMID:16794580^[5]

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

References

↑ Kessler MM, Henry MF, Shen E, Zhao J, Gross S, Silver PA, Moore CL. Hrp1, a sequence-specific RNA-binding protein that shuttles between the nucleus and the cytoplasm, is required for mRNA 3'-end formation in yeast. Genes Dev. 1997 Oct 1;11(19):2545-56. PMID:9334319
↑ Minvielle-Sebastia L, Beyer K, Krecic AM, Hector RE, Swanson MS, Keller W. Control of cleavage site selection during mRNA 3' end formation by a yeast hnRNP. EMBO J. 1998 Dec 15;17(24):7454-68. PMID:9857200 doi:https://dx.doi.org/10.1093/emboj/17.24.7454
↑ Gonzalez CI, Ruiz-Echevarria MJ, Vasudevan S, Henry MF, Peltz SW. The yeast hnRNP-like protein Hrp1/Nab4 marks a transcript for nonsense-mediated mRNA decay. Mol Cell. 2000 Mar;5(3):489-99. PMID:10882134
↑ Gross S, Moore C. Five subunits are required for reconstitution of the cleavage and polyadenylation activities of Saccharomyces cerevisiae cleavage factor I. Proc Natl Acad Sci U S A. 2001 May 22;98(11):6080-5. Epub 2001 May 8. PMID:11344258 doi:https://dx.doi.org/10.1073/pnas.101046598
↑ Perez-Canadillas JM. Grabbing the message: structural basis of mRNA 3'UTR recognition by Hrp1. EMBO J. 2006 Jul 12;25(13):3167-78. Epub 2006 Jun 22. PMID:16794580

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Kessler MM, Henry MF, Shen E, Zhao J, Gross S, Silver PA, Moore CL. Hrp1, a sequence-specific RNA-binding protein that shuttles between the nucleus and the cytoplasm, is required for mRNA 3'-end formation in yeast. Genes Dev. 1997 Oct 1;11(19):2545-56. PMID:9334319

[2] Minvielle-Sebastia L, Beyer K, Krecic AM, Hector RE, Swanson MS, Keller W. Control of cleavage site selection during mRNA 3' end formation by a yeast hnRNP. EMBO J. 1998 Dec 15;17(24):7454-68. PMID:9857200 doi:https://dx.doi.org/10.1093/emboj/17.24.7454

[3] Gonzalez CI, Ruiz-Echevarria MJ, Vasudevan S, Henry MF, Peltz SW. The yeast hnRNP-like protein Hrp1/Nab4 marks a transcript for nonsense-mediated mRNA decay. Mol Cell. 2000 Mar;5(3):489-99. PMID:10882134

[4] Gross S, Moore C. Five subunits are required for reconstitution of the cleavage and polyadenylation activities of Saccharomyces cerevisiae cleavage factor I. Proc Natl Acad Sci U S A. 2001 May 22;98(11):6080-5. Epub 2001 May 8. PMID:11344258 doi:https://dx.doi.org/10.1073/pnas.101046598

[5] Perez-Canadillas JM. Grabbing the message: structural basis of mRNA 3'UTR recognition by Hrp1. EMBO J. 2006 Jul 12;25(13):3167-78. Epub 2006 Jun 22. PMID:16794580

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[2]

[3]

[4]

[5]

@@ Line 1: / Line 1: @@
 ==Structure of the RNA binding domain of Hrp1 in complex with RNA==
-<StructureSection load='2cjk' size='340' side='right'caption='[[2cjk]], [[NMR_Ensembles_of_Models | 25 NMR models]]' scene=''>
+<StructureSection load='2cjk' size='340' side='right'caption='[[2cjk]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2cjk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CJK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CJK FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2cjk]] is a 2 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=2CJK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CJK 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=2cjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cjk OCA], [https://pdbe.org/2cjk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cjk RCSB], [https://www.ebi.ac.uk/pdbsum/2cjk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cjk 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=2cjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cjk OCA], [https://pdbe.org/2cjk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cjk RCSB], [https://www.ebi.ac.uk/pdbsum/2cjk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cjk ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/HRP1_YEAST HRP1_YEAST]] RNA-binding protein, which is involved in the polyadenylation-dependent pre-mRNA 3'-end formation and cooperates with the cleavage factor CFIA complex and the cleavage and polyadenylation factor (CPF) complex. May be involved in regulation of poly(A) site selection. Is involved in nonsense-mediated mRNA decay. Seems to bind to an RNA downstream sequence element (DSE) located 3' of a nonsense codon and may mark the transcript for decay.<ref>PMID:9334319</ref> <ref>PMID:9857200</ref> <ref>PMID:10882134</ref> <ref>PMID:11344258</ref>
+[https://www.uniprot.org/uniprot/HRP1_YEAST HRP1_YEAST] RNA-binding protein, which is involved in the polyadenylation-dependent pre-mRNA 3'-end formation and cooperates with the cleavage factor CFIA complex and the cleavage and polyadenylation factor (CPF) complex. May be involved in regulation of poly(A) site selection. Is involved in nonsense-mediated mRNA decay. Seems to bind to an RNA downstream sequence element (DSE) located 3' of a nonsense codon and may mark the transcript for decay.<ref>PMID:9334319</ref> <ref>PMID:9857200</ref> <ref>PMID:10882134</ref> <ref>PMID:11344258</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 31: / Line 32: @@
 __TOC__
 </StructureSection>
-[[Category: Atcc 18824]]
 [[Category: Large Structures]]
-[[Category: Perez-Canadillas, J M]]
+[[Category: Saccharomyces cerevisiae]]
-[[Category: Cleavage]]
+[[Category: Perez-Canadillas JM]]
-[[Category: Hrp1]]
-[[Category: Mrna processing]]
-[[Category: Nonsense-mediated mrna decay]]
-[[Category: Nuclear protein]]
-[[Category: Polyadenylation]]
-[[Category: Rna binding protein]]
-[[Category: Rna processing]]
-[[Category: Rna-binding]]
-[[Category: Rna-binding protein]]

2cjk: Difference between revisions

Latest revision as of 05:34, 15 May 2024

Structure of the RNA binding domain of Hrp1 in complex with RNA

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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