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2q7g

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[[Image:2q7g.gif|left|200px]]
 
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{{Structure
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==Pyrrolysine tRNA Synthetase bound to a pyrrolysine analogue (cyc) and ATP==
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|PDB= 2q7g |SIZE=350|CAPTION= <scene name='initialview01'>2q7g</scene>, resolution 1.90&Aring;
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<StructureSection load='2q7g' size='340' side='right'caption='[[2q7g]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=ATP:ADENOSINE-5&#39;-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CCL:N~6~-[(CYCLOPENTYLOXY)CARBONYL]-D-LYSINE'>CCL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>
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<table><tr><td colspan='2'>[[2q7g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanosarcina_mazei Methanosarcina mazei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Q7G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Q7G FirstGlance]. <br>
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|ACTIVITY=
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
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|GENE= pylS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2209 Methanosarcina mazei])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CCL:N~6~-[(CYCLOPENTYLOXY)CARBONYL]-D-LYSINE'>CCL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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|DOMAIN=
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2q7g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2q7g OCA], [https://pdbe.org/2q7g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2q7g RCSB], [https://www.ebi.ac.uk/pdbsum/2q7g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2q7g ProSAT]</span></td></tr>
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|RELATEDENTRY=[[2q7e|2Q7E]], [[2q7h|2Q7H]]
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2q7g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2q7g OCA], [http://www.ebi.ac.uk/pdbsum/2q7g PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2q7g RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/PYLS_METMA PYLS_METMA] Catalyzes the attachment of pyrrolysine to tRNA(Pyl). Pyrrolysine is a lysine derivative encoded by the termination codon UAG (By similarity).
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/q7/2q7g_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2q7g ConSurf].
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<div style="clear:both"></div>
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'''Pyrrolysine tRNA Synthetase bound to a pyrrolysine analogue (cyc) and ATP'''
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==See Also==
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*[[Aminoacyl tRNA synthetase 3D structures|Aminoacyl tRNA synthetase 3D structures]]
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__TOC__
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==Overview==
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</StructureSection>
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Pyrrolysine (Pyl), the 22nd natural amino acid and genetically encoded by UAG, becomes attached to its cognate tRNA by pyrrolysyl-tRNA synthetase (PylRS). We have determined three crystal structures of the Methanosarcina mazei PylRS complexed with either AMP-PNP, Pyl-AMP plus pyrophosphate, or the Pyl analogue N-epsilon-[(cylopentyloxy)carbonyl]-L-lysine plus ATP. The structures reveal that PylRS utilizes a deep hydrophobic pocket for recognition of the Pyl side chain. A comparison of these structures with previously determined class II tRNA synthetase complexes illustrates that different substrate specificities derive from changes in a small number of residues that form the substrate side-chain-binding pocket. The knowledge of these structures allowed the placement of PylRS in the aminoacyl-tRNA synthetase (aaRS) tree as the last known synthetase that evolved for genetic code expansion, as well as the finding that Pyl arose before the last universal common ancestral state. The PylRS structure provides an excellent framework for designing new aaRSs with altered amino acid specificity.
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[[Category: Large Structures]]
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==About this Structure==
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2Q7G is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Methanosarcina_mazei Methanosarcina mazei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Q7G OCA].
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==Reference==
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Structure of pyrrolysyl-tRNA synthetase, an archaeal enzyme for genetic code innovation., Kavran JM, Gundllapalli S, O'Donoghue P, Englert M, Soll D, Steitz TA, Proc Natl Acad Sci U S A. 2007 Jul 3;104(27):11268-73. Epub 2007 Jun 25. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17592110 17592110]
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[[Category: Methanosarcina mazei]]
[[Category: Methanosarcina mazei]]
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[[Category: Single protein]]
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[[Category: Kavran JM]]
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[[Category: Kavran, J M.]]
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[[Category: Steitz TA]]
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[[Category: Steitz, T A.]]
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[[Category: pyrrolysine]]
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[[Category: pyrrolysyl-trna syntethetase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:45:51 2008''
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Current revision

Pyrrolysine tRNA Synthetase bound to a pyrrolysine analogue (cyc) and ATP

PDB ID 2q7g

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