3kx2: Difference between revisions

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==Crystal structure of Prp43p in complex with ADP==
==Crystal structure of Prp43p in complex with ADP==
<StructureSection load='3kx2' size='340' side='right' caption='[[3kx2]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
<StructureSection load='3kx2' size='340' side='right'caption='[[3kx2]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3kx2]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KX2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KX2 FirstGlance]. <br>
<table><tr><td colspan='2'>[[3kx2]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KX2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KX2 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">YGL120C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=3kx2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kx2 OCA], [http://pdbe.org/3kx2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kx2 RCSB], [http://www.ebi.ac.uk/pdbsum/3kx2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kx2 ProSAT]</span></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=3kx2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kx2 OCA], [https://pdbe.org/3kx2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kx2 RCSB], [https://www.ebi.ac.uk/pdbsum/3kx2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kx2 ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/PRP43_YEAST PRP43_YEAST]] Pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA.<ref>PMID:9342317</ref> <ref>PMID:16880513</ref>
[https://www.uniprot.org/uniprot/PRP43_YEAST PRP43_YEAST] Pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA.<ref>PMID:9342317</ref> <ref>PMID:16880513</ref>  
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
   <jmolCheckbox>
   <jmolCheckbox>
     <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kx/3kx2_consurf.spt"</scriptWhenChecked>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kx/3kx2_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
     <text>to colour the structure by Evolutionary Conservation</text>
Line 20: Line 20:
</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=3kx2 ConSurf].
</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=3kx2 ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
DEAH helicases participate in pre-messenger RNA splicing and ribosome biogenesis. The structure of yeast Prp43p-ADP reveals the homology of DEAH helicases to DNA helicases and the presence of an oligonucleotide-binding motif. A beta-hairpin from the second RecA domain is wedged between two carboxy-terminal domains and blocks access to the occluded RNA binding site formed by the RecA domains and a C-terminal domain. ATP binding and hydrolysis are likely to induce conformational changes in the hairpin that are important for RNA unwinding or ribonucleoprotein remodelling. The structure of Prp43p provides the framework for functional and genetic analysis of all DEAH helicases.


Structural basis for the function of DEAH helicases.,He Y, Andersen GR, Nielsen KH EMBO Rep. 2010 Mar;11(3):180-6. Epub 2010 Feb 19. PMID:20168331<ref>PMID:20168331</ref>
==See Also==
 
*[[Helicase 3D structures|Helicase 3D structures]]
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
*[[Pre-mRNA splicing factors 3D structures|Pre-mRNA splicing factors 3D structures]]
</div>
<div class="pdbe-citations 3kx2" style="background-color:#fffaf0;"></div>
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Baker's yeast]]
[[Category: Large Structures]]
[[Category: Andersen, G R]]
[[Category: Saccharomyces cerevisiae S288C]]
[[Category: He, Y]]
[[Category: Andersen GR]]
[[Category: Nielsen, K H]]
[[Category: He Y]]
[[Category: Atp-binding]]
[[Category: Nielsen KH]]
[[Category: Hydrolase]]
[[Category: Mrna processing]]
[[Category: Mrna splicing]]
[[Category: Nucleotide-binding]]
[[Category: Ob fold]]
[[Category: Rec-a domain]]
[[Category: Winged-helix domain]]

Latest revision as of 11:30, 20 March 2024

Crystal structure of Prp43p in complex with ADPCrystal structure of Prp43p in complex with ADP

Structural highlights

3kx2 is a 2 chain structure with sequence from Saccharomyces cerevisiae S288C. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.2Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PRP43_YEAST Pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA.[1] [2]

Evolutionary Conservation

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

See Also

References

  1. ↑ Arenas JE, Abelson JN. Prp43: An RNA helicase-like factor involved in spliceosome disassembly. Proc Natl Acad Sci U S A. 1997 Oct 28;94(22):11798-802. PMID:9342317
  2. ↑ Boon KL, Auchynnikava T, Edwalds-Gilbert G, Barrass JD, Droop AP, Dez C, Beggs JD. Yeast ntr1/spp382 mediates prp43 function in postspliceosomes. Mol Cell Biol. 2006 Aug;26(16):6016-23. PMID:16880513 doi:http://dx.doi.org/10.1128/MCB.02347-05

3kx2, resolution 2.20Å

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