2dq3: Difference between revisions

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[[Image:2dq3.jpg|left|200px]]


{{Structure
==Crystal structure of aq_298==
|PDB= 2dq3 |SIZE=350|CAPTION= <scene name='initialview01'>2dq3</scene>, resolution 3.00&Aring;
<StructureSection load='2dq3' size='340' side='right'caption='[[2dq3]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SSA:5&#39;-O-(N-(L-SERYL)-SULFAMOYL)ADENOSINE'>SSA</scene>
<table><tr><td colspan='2'>[[2dq3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Aquifex_aeolicus_VF5 Aquifex aeolicus VF5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DQ3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DQ3 FirstGlance]. <br>
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Serine--tRNA_ligase Serine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.11 6.1.1.11] </span>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3&#8491;</td></tr>
|GENE= serS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63363 Aquifex aeolicus])
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SSA:5-O-(N-(L-SERYL)-SULFAMOYL)ADENOSINE'>SSA</scene></td></tr>
|DOMAIN=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dq3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dq3 OCA], [https://pdbe.org/2dq3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dq3 RCSB], [https://www.ebi.ac.uk/pdbsum/2dq3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dq3 ProSAT], [https://www.topsan.org/Proteins/RSGI/2dq3 TOPSAN]</span></td></tr>
|RELATEDENTRY=
</table>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2dq3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dq3 OCA], [http://www.ebi.ac.uk/pdbsum/2dq3 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2dq3 RCSB]</span>
== Function ==
}}
[https://www.uniprot.org/uniprot/SYS_AQUAE SYS_AQUAE] Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec) (By similarity).
== 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/dq/2dq3_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=2dq3 ConSurf].
<div style="clear:both"></div>


'''Crystal structure of aq_298'''
==See Also==
 
*[[Aminoacyl tRNA synthetase 3D structures|Aminoacyl tRNA synthetase 3D structures]]
 
__TOC__
==About this Structure==
</StructureSection>
2DQ3 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DQ3 OCA].
[[Category: Aquifex aeolicus VF5]]
[[Category: Aquifex aeolicus]]
[[Category: Large Structures]]
[[Category: Serine--tRNA ligase]]
[[Category: Itoh Y]]
[[Category: Single protein]]
[[Category: Sekine S]]
[[Category: Itoh, Y.]]
[[Category: Yokoyama S]]
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
[[Category: Sekine, S.]]
[[Category: Yokoyama, S.]]
[[Category: coiled-coil]]
[[Category: homodimer]]
[[Category: national project on protein structural and functional analyse]]
[[Category: nppsfa]]
[[Category: riken structural genomics/proteomics initiative]]
[[Category: rsgi]]
[[Category: structural genomic]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:37:53 2008''

Latest revision as of 03:52, 21 November 2024

Crystal structure of aq_298Crystal structure of aq_298

Structural highlights

2dq3 is a 2 chain structure with sequence from Aquifex aeolicus VF5. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 3Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

SYS_AQUAE Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec) (By similarity).

Evolutionary Conservation

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

See Also

2dq3, resolution 3.00Å

Drag the structure with the mouse to rotate

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