1k1g: Difference between revisions

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New page: left|200px<br /> <applet load="1k1g" size="450" color="white" frame="true" align="right" spinBox="true" caption="1k1g" /> '''STRUCTURAL BASIS FOR RECOGNITION OF THE INT...
 
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[[Image:1k1g.gif|left|200px]]<br />
<applet load="1k1g" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1k1g" />
'''STRUCTURAL BASIS FOR RECOGNITION OF THE INTRON BRANCH SITE RNA BY SPLICING FACTOR 1'''<br />


==Overview==
==STRUCTURAL BASIS FOR RECOGNITION OF THE INTRON BRANCH SITE RNA BY SPLICING FACTOR 1==
During spliceosome assembly, splicing factor 1 (SF1) specifically, recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA, transcripts. We show that the KH-QUA2 region of SF1 defines an enlarged KH, (hn RNP K) fold which is necessary and sufficient for BPS binding. The 3', part of the BPS (UAAC), including the conserved branch point adenosine, (underlined), is specifically recognized in a hydrophobic cleft formed by, the Gly-Pro-Arg-Gly motif and the variable loop of the KH domain. The QUA2, region recognizes the 5' nucleotides of the BPS (ACU). The branch point, adenosine acting as the nucleophile in the first biochemical step of, splicing is deeply buried. BPS RNA recognition suggests how SF1 may, facilitate subsequent formation of the prespliceosomal complex A.
<StructureSection load='1k1g' size='340' side='right'caption='[[1k1g]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1k1g]] is a 2 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=1K1G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1K1G FirstGlance]. <br>
</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=1k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1k1g OCA], [https://pdbe.org/1k1g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1k1g RCSB], [https://www.ebi.ac.uk/pdbsum/1k1g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1k1g ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/SF01_HUMAN SF01_HUMAN] Necessary for the ATP-dependent first step of spliceosome assembly. Binds to the intron branch point sequence (BPS) 5'-UACUAAC-3' of the pre-mRNA. May act as transcription repressor.<ref>PMID:8752089</ref> <ref>PMID:10449420</ref> <ref>PMID:9660765</ref>
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k1/1k1g_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=1k1g ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
During spliceosome assembly, splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hn RNP K) fold which is necessary and sufficient for BPS binding. The 3' part of the BPS (UAAC), including the conserved branch point adenosine (underlined), is specifically recognized in a hydrophobic cleft formed by the Gly-Pro-Arg-Gly motif and the variable loop of the KH domain. The QUA2 region recognizes the 5' nucleotides of the BPS (ACU). The branch point adenosine acting as the nucleophile in the first biochemical step of splicing is deeply buried. BPS RNA recognition suggests how SF1 may facilitate subsequent formation of the prespliceosomal complex A.


==About this Structure==
Structural basis for recognition of the intron branch site RNA by splicing factor 1.,Liu Z, Luyten I, Bottomley MJ, Messias AC, Houngninou-Molango S, Sprangers R, Zanier K, Kramer A, Sattler M Science. 2001 Nov 2;294(5544):1098-102. PMID:11691992<ref>PMID:11691992</ref>
1K1G is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1K1G OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Structural basis for recognition of the intron branch site RNA by splicing factor 1., Liu Z, Luyten I, Bottomley MJ, Messias AC, Houngninou-Molango S, Sprangers R, Zanier K, Kramer A, Sattler M, Science. 2001 Nov 2;294(5544):1098-102. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11691992 11691992]
</div>
<div class="pdbe-citations 1k1g" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Bottomley, M.J.]]
[[Category: Bottomley MJ]]
[[Category: Houngninou-Molango, S.]]
[[Category: Houngninou-Molango S]]
[[Category: Kramer, A.]]
[[Category: Kramer A]]
[[Category: Liu, Z.]]
[[Category: Liu Z]]
[[Category: Luyten, I.]]
[[Category: Luyten I]]
[[Category: Messias, A.C.]]
[[Category: Messias AC]]
[[Category: Sattler, M.]]
[[Category: Sattler M]]
[[Category: Sprangers, R.]]
[[Category: Sprangers R]]
[[Category: Zanier, K.]]
[[Category: Zanier K]]
[[Category: branch point sequence]]
[[Category: complex e]]
[[Category: kh domain]]
[[Category: protein/rna recognition]]
[[Category: qua2 homology]]
[[Category: splicing]]
[[Category: star proteins]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 17:46:34 2007''

Latest revision as of 11:39, 22 May 2024

STRUCTURAL BASIS FOR RECOGNITION OF THE INTRON BRANCH SITE RNA BY SPLICING FACTOR 1STRUCTURAL BASIS FOR RECOGNITION OF THE INTRON BRANCH SITE RNA BY SPLICING FACTOR 1

Structural highlights

1k1g is a 2 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

Function

SF01_HUMAN Necessary for the ATP-dependent first step of spliceosome assembly. Binds to the intron branch point sequence (BPS) 5'-UACUAAC-3' of the pre-mRNA. May act as transcription repressor.[1] [2] [3]

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

During spliceosome assembly, splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hn RNP K) fold which is necessary and sufficient for BPS binding. The 3' part of the BPS (UAAC), including the conserved branch point adenosine (underlined), is specifically recognized in a hydrophobic cleft formed by the Gly-Pro-Arg-Gly motif and the variable loop of the KH domain. The QUA2 region recognizes the 5' nucleotides of the BPS (ACU). The branch point adenosine acting as the nucleophile in the first biochemical step of splicing is deeply buried. BPS RNA recognition suggests how SF1 may facilitate subsequent formation of the prespliceosomal complex A.

Structural basis for recognition of the intron branch site RNA by splicing factor 1.,Liu Z, Luyten I, Bottomley MJ, Messias AC, Houngninou-Molango S, Sprangers R, Zanier K, Kramer A, Sattler M Science. 2001 Nov 2;294(5544):1098-102. PMID:11691992[4]

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

References

  1. ↑ Arning S, Gruter P, Bilbe G, Kramer A. Mammalian splicing factor SF1 is encoded by variant cDNAs and binds to RNA. RNA. 1996 Aug;2(8):794-810. PMID:8752089
  2. ↑ Wang X, Bruderer S, Rafi Z, Xue J, Milburn PJ, Kramer A, Robinson PJ. Phosphorylation of splicing factor SF1 on Ser20 by cGMP-dependent protein kinase regulates spliceosome assembly. EMBO J. 1999 Aug 16;18(16):4549-59. PMID:10449420 doi:http://dx.doi.org/10.1093/emboj/18.16.4549
  3. ↑ Zhang D, Paley AJ, Childs G. The transcriptional repressor ZFM1 interacts with and modulates the ability of EWS to activate transcription. J Biol Chem. 1998 Jul 17;273(29):18086-91. PMID:9660765
  4. ↑ Liu Z, Luyten I, Bottomley MJ, Messias AC, Houngninou-Molango S, Sprangers R, Zanier K, Kramer A, Sattler M. Structural basis for recognition of the intron branch site RNA by splicing factor 1. Science. 2001 Nov 2;294(5544):1098-102. PMID:11691992 doi:http://dx.doi.org/10.1126/science.1064719
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