3dm9: Difference between revisions

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{{Seed}}
[[Image:3dm9.png|left|200px]]


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==Structures and Conformations in Solution of the Signal Recognition Particle Receptor from the archaeon Pyrococcus furiosus==
The line below this paragraph, containing "STRUCTURE_3dm9", creates the "Structure Box" on the page.
<StructureSection load='3dm9' size='340' side='right'caption='[[3dm9]], [[Resolution|resolution]] 2.20&Aring;' 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'>[[3dm9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43587 Atcc 43587]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DM9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DM9 FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
{{STRUCTURE_3dm9|  PDB=3dm9  |  SCENE=  }}
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3dmd|3dmd]]</div></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PF1766 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2261 ATCC 43587])</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=3dm9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dm9 OCA], [https://pdbe.org/3dm9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dm9 RCSB], [https://www.ebi.ac.uk/pdbsum/3dm9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dm9 ProSAT]</span></td></tr>
</table>
== Function ==
[[https://www.uniprot.org/uniprot/Q8U051_PYRFU Q8U051_PYRFU]] Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Acts as a receptor for the complex formed by the signal recognition particle (SRP) and the ribosome-nascent chain (RNC) (By similarity).[HAMAP-Rule:MF_00920]
== 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/dm/3dm9_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=3dm9 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
In all organisms, a ribonucleoprotein called the signal recognition particle (SRP) and its receptor (SR) target nascent proteins from the ribosome to the translocon for secretion or membrane insertion. We present the first X-ray structures of an archeal FtsY, the receptor from the hyper-thermophile Pyrococcus furiosus (Pfu), in its free and GDP*magnesium-bound forms. The highly charged N-terminal domain of Pfu-FtsY is distinguished by a long N-terminal helix. The basic charges on the surface of this helix are likely to regulate interactions at the membrane. A peripheral GDP bound near a regulatory motif could indicate a site of interaction between the receptor and ribosomal or SRP RNAs. Small angle X-ray scattering and analytical ultracentrifugation indicate that the crystal structure of Pfu-FtsY correlates well with the average conformation in solution. Based on previous structures of two sub-complexes, we propose a model of the core of archeal and eukaryotic SRP*SR targeting complexes.


===Structures and Conformations in Solution of the Signal Recognition Particle Receptor from the archaeon Pyrococcus furiosus===
Structures of the signal recognition particle receptor from the archaeon Pyrococcus furiosus: implications for the targeting step at the membrane.,Egea PF, Tsuruta H, de Leon GP, Napetschnig J, Walter P, Stroud RM PLoS ONE. 2008;3(11):e3619. Epub 2008 Nov 3. PMID:18978942<ref>PMID:18978942</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3dm9" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_18978942}}, adds the Publication Abstract to the page
*[[Signal recognition particle receptor|Signal recognition particle receptor]]
(as it appears on PubMed at http://www.pubmed.gov), where 18978942 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_18978942}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Atcc 43587]]
3DM9 is a 1 chain 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=3DM9 OCA].
[[Category: Large Structures]]
 
[[Category: Egea, P F]]
==Reference==
[[Category: Napetschnig, J]]
<ref group="xtra">PMID:18978942</ref><references group="xtra"/>
[[Category: Stroud, R M]]
[[Category: Pyrococcus furiosus]]
[[Category: Tsuruta, H]]
[[Category: Egea, P F.]]
[[Category: Walter, P]]
[[Category: Napetschnig, J.]]
[[Category: Stroud, R M.]]
[[Category: Tsuruta, H.]]
[[Category: Walter, P.]]
[[Category: Ftsy]]
[[Category: Ftsy]]
[[Category: Protein targeting]]
[[Category: Protein targeting]]
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[[Category: Srp-gtpase]]
[[Category: Srp-gtpase]]
[[Category: Transport protein]]
[[Category: Transport protein]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 06:55:08 2009''
Retrieved from "https://proteopedia.org/3dm9"