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2ldl

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==Solution NMR Structure of the HIV-1 Exon Splicing Silencer 3==
==Solution NMR Structure of the HIV-1 Exon Splicing Silencer 3==
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<StructureSection load='2ldl' size='340' side='right' caption='[[2ldl]], [[NMR_Ensembles_of_Models | 12 NMR models]]' scene=''>
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<StructureSection load='2ldl' size='340' side='right'caption='[[2ldl]]' scene=''>
== Structural highlights ==
== Structural highlights ==
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[[2ldl]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LDL OCA]. <br>
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<table><tr><td colspan='2'>[[2ldl]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LDL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LDL FirstGlance]. <br>
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<b>Activity:</b> <span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </span><br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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<b>Resources:</b> <span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ldl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ldl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ldl RCSB], [http://www.ebi.ac.uk/pdbsum/2ldl PDBsum]</span><br>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ldl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ldl OCA], [https://pdbe.org/2ldl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ldl RCSB], [https://www.ebi.ac.uk/pdbsum/2ldl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ldl ProSAT]</span></td></tr>
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== Publication Abstract from PubMed ==
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</table>
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Alternative splicing of the human immunodeficiency virus type 1 (HIV-1) genomic RNA is necessary to produce the complete viral protein complement, and aberrations in the splicing pattern impair HIV-1 replication. Genome splicing in HIV-1 is tightly regulated by the dynamic assembly/disassembly of trans host factors with cis RNA control elements. The host protein, heterogeneous nuclear ribonucleoprotein (hnRNP) A1, regulates splicing at several highly conserved HIV-1 3' splice sites by binding 5'-UAG-3' elements embedded within regions containing RNA structure. The physical determinants of hnRNP A1 splice site recognition remain poorly defined in HIV-1, thus precluding a detailed understanding of the molecular basis of the splicing pattern. Here, the three-dimensional structure of the exon splicing silencer 3 (ESS3) from HIV-1 has been determined using NMR spectroscopy. ESS3 adopts a 27-nucleotide hairpin with a 10-bp A-form stem that contains a pH-sensitive A(+)C wobble pair. The seven-nucleotide hairpin loop contains the high-affinity hnRNP-A1-responsive 5'-UAGU-3' element and a proximal 5'-GAU-3' motif. The NMR structure shows that the heptaloop adopts a well-organized conformation stabilized primarily by base stacking interactions reminiscent of a U-turn. The apex of the loop is quasi-symmetric with UA dinucleotide steps from the 5'-GAU-3' and 5'-UAGU-3' motifs stacking on opposite sides of the hairpin. As a step towards understanding the binding mechanism, we performed calorimetric and NMR titrations of several hnRNP A1 subdomains into ESS3. The data show that the UP1 domain forms a high-affinity (K(d)=37.8+/-1.1 nM) complex with ESS3 via site-specific interactions with the loop.
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Solution Structure of the HIV-1 Exon Splicing Silencer 3.,Levengood JD, Rollins C, Mishler CH, Johnson CA, Miner G, Rajan P, Znosko BM, Tolbert BS J Mol Biol. 2011 Nov 29. PMID:22154809<ref>PMID:22154809</ref>
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Johnson, C A.]]
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[[Category: Human immunodeficiency virus 1]]
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[[Category: Levengood, J D.]]
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[[Category: Large Structures]]
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[[Category: Mishler, C.]]
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[[Category: Johnson CA]]
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[[Category: Rajan, P.]]
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[[Category: Levengood JD]]
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[[Category: Znosko, B M.]]
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[[Category: Mishler C]]
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[[Category: Exon splicing silencer]]
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[[Category: Rajan P]]
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[[Category: Rna]]
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[[Category: Znosko BM]]

Current revision

Solution NMR Structure of the HIV-1 Exon Splicing Silencer 3

PDB ID 2ldl

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