2fyh: Difference between revisions

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[[Image:2fyh.jpg|left|200px]]


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==Solution structure of the 2'-5' RNA ligase-like protein from Pyrococcus furiosus==
The line below this paragraph, containing "STRUCTURE_2fyh", creates the "Structure Box" on the page.
<StructureSection load='2fyh' size='340' side='right'caption='[[2fyh]]' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[2fyh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FYH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FYH FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</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=2fyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fyh OCA], [https://pdbe.org/2fyh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fyh RCSB], [https://www.ebi.ac.uk/pdbsum/2fyh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fyh ProSAT], [https://www.topsan.org/Proteins/RSGI/2fyh TOPSAN]</span></td></tr>
{{STRUCTURE_2fyh|  PDB=2fyh  |  SCENE= }}
</table>
 
== Function ==
'''Solution structure of the 2'-5' RNA ligase-like protein from Pyrococcus furiosus'''
[https://www.uniprot.org/uniprot/THPR_PYRFU THPR_PYRFU] Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'-phosphomonoester. In vitro, ligates 5' and 3' half-tRNA molecules with 2',3'-cyclic phosphate and 5'-hydroxyl termini, respectively, to the product containing the 2'-5' phosphodiester linkage. Ligase activity requires GTP, but GTP hydrolysis is not required for the reaction, which is reversible. Ligase activity is weak compared to the phosphodiesterase activity.<ref>PMID:19155324</ref>
 
== Evolutionary Conservation ==
 
[[Image:Consurf_key_small.gif|200px|right]]
==About this Structure==
Check<jmol>
2FYH is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FYH OCA].  
  <jmolCheckbox>
[[Category: Pyrococcus furiosus]]
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fy/2fyh_consurf.spt"</scriptWhenChecked>
[[Category: Single protein]]
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
[[Category: Kanai, A.]]
    <text>to colour the structure by Evolutionary Conservation</text>
[[Category: Kawai, G.]]
  </jmolCheckbox>
[[Category: Matsuda, T.]]
</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=2fyh ConSurf].
[[Category: Muto, Y.]]
<div style="clear:both"></div>
[[Category: Okada, K.]]
== References ==
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
<references/>
[[Category: Sakamoto, T.]]
__TOC__
[[Category: Yokoyama, S.]]
</StructureSection>
[[Category: 2'-5' rna ligase-like protein]]
[[Category: Large Structures]]
[[Category: Hxtx motif]]
[[Category: Pyrococcus furiosus DSM 3638]]
[[Category: National project on protein structural and functional analyse]]
[[Category: Kanai A]]
[[Category: Nmr]]
[[Category: Kawai G]]
[[Category: Nppsfa]]
[[Category: Matsuda T]]
[[Category: Pyrococcus furiosus]]
[[Category: Muto Y]]
[[Category: Riken structural genomics/proteomics initiative]]
[[Category: Okada K]]
[[Category: Rsgi]]
[[Category: Sakamoto T]]
[[Category: Structural genomic]]
[[Category: Yokoyama S]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 04:27:04 2008''

Latest revision as of 09:40, 1 May 2024

Solution structure of the 2'-5' RNA ligase-like protein from Pyrococcus furiosusSolution structure of the 2'-5' RNA ligase-like protein from Pyrococcus furiosus

Structural highlights

2fyh is a 1 chain structure with sequence from Pyrococcus furiosus DSM 3638. 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

THPR_PYRFU Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'-phosphomonoester. In vitro, ligates 5' and 3' half-tRNA molecules with 2',3'-cyclic phosphate and 5'-hydroxyl termini, respectively, to the product containing the 2'-5' phosphodiester linkage. Ligase activity requires GTP, but GTP hydrolysis is not required for the reaction, which is reversible. Ligase activity is weak compared to the phosphodiesterase activity.[1]

Evolutionary Conservation

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

References

  1. ↑ Kanai A, Sato A, Fukuda Y, Okada K, Matsuda T, Sakamoto T, Muto Y, Yokoyama S, Kawai G, Tomita M. Characterization of a heat-stable enzyme possessing GTP-dependent RNA ligase activity from a hyperthermophilic archaeon, Pyrococcus furiosus. RNA. 2009 Mar;15(3):420-31. Epub 2009 Jan 20. PMID:19155324 doi:10.1261/rna.1122109
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