3din: Difference between revisions

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{{Seed}}
[[Image:3din.jpg|left|200px]]


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==Crystal structure of the protein-translocation complex formed by the SecY channel and the SecA ATPase==
The line below this paragraph, containing "STRUCTURE_3din", creates the "Structure Box" on the page.
<StructureSection load='3din' size='340' side='right'caption='[[3din]], [[Resolution|resolution]] 4.50&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'>[[3din]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8] and [https://en.wikipedia.org/wiki/Thermotoga_sp._RQ2 Thermotoga sp. RQ2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DIN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DIN 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">X-ray diffraction, [[Resolution|Resolution]] 4.5&#8491;</td></tr>
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<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=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
{{STRUCTURE_3din|  PDB=3din  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3din FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3din OCA], [https://pdbe.org/3din PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3din RCSB], [https://www.ebi.ac.uk/pdbsum/3din PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3din ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/SECE_THEMA SECE_THEMA] Essential subunit of the protein translocation channel SecYEG. Clamps together the 2 halves of SecY. May contact the channel plug during translocation.
== 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/di/3din_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3din ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Most proteins are secreted from bacteria by the interaction of the cytoplasmic SecA ATPase with a membrane channel, formed by the heterotrimeric SecY complex. Here we report the crystal structure of SecA bound to the SecY complex, with a maximum resolution of 4.5 angstrom (A), obtained for components from Thermotoga maritima. One copy of SecA in an intermediate state of ATP hydrolysis is bound to one molecule of the SecY complex. Both partners undergo important conformational changes on interaction. The polypeptide-cross-linking domain of SecA makes a large conformational change that could capture the translocation substrate in a 'clamp'. Polypeptide movement through the SecY channel could be achieved by the motion of a 'two-helix finger' of SecA inside the cytoplasmic funnel of SecY, and by the coordinated tightening and widening of SecA's clamp above the SecY pore. SecA binding generates a 'window' at the lateral gate of the SecY channel and it displaces the plug domain, preparing the channel for signal sequence binding and channel opening.


===Crystal structure of the protein-translocation complex formed by the SecY channel and the SecA ATPase===
Structure of a complex of the ATPase SecA and the protein-translocation channel.,Zimmer J, Nam Y, Rapoport TA Nature. 2008 Oct 16;455(7215):936-43. PMID:18923516<ref>PMID:18923516</ref>


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


==About this Structure==
==See Also==
3DIN is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Thermotoga_maritima_msb8 Thermotoga maritima msb8] and [http://en.wikipedia.org/wiki/Thermotoga_sp._rq2 Thermotoga sp. rq2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DIN OCA].
*[[Preprotein translocase 3D structures|Preprotein translocase 3D structures]]
[[Category: Protein complex]]
*[[SecA|SecA]]
[[Category: Thermotoga maritima msb8]]
== References ==
[[Category: Thermotoga sp. rq2]]
<references/>
[[Category: Rapoport, T A.]]
__TOC__
[[Category: Zimmer, J.]]
</StructureSection>
[[Category: Atp-binding]]
[[Category: Large Structures]]
[[Category: Atpase]]
[[Category: Thermotoga maritima MSB8]]
[[Category: Cytoplasm]]
[[Category: Thermotoga sp. RQ2]]
[[Category: Inner membrane]]
[[Category: Nam Y]]
[[Category: Membrane protein]]
[[Category: Rapoport TA]]
[[Category: Nucleotide-binding]]
[[Category: Zimmer J]]
[[Category: Protein translocation]]
[[Category: Protein transport]]
[[Category: Transmembrane]]
[[Category: Transport]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct  8 09:29:48 2008''

Latest revision as of 09:05, 13 August 2026

Crystal structure of the protein-translocation complex formed by the SecY channel and the SecA ATPase

3din, resolution 4.50Å

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