1pud

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(New page: 200px<br /><applet load="1pud" size="450" color="white" frame="true" align="right" spinBox="true" caption="1pud, resolution 1.85&Aring;" /> '''TRNA-GUANINE TRANSGL...)
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[[Image:1pud.gif|left|200px]]<br /><applet load="1pud" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1pud, resolution 1.85&Aring;" />
 
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'''TRNA-GUANINE TRANSGLYCOSYLASE'''<br />
 
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==Overview==
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==TRNA-GUANINE TRANSGLYCOSYLASE==
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tRNA-guanine transglycosylases (TGT) are enzymes involved in the, modification of the anticodon of tRNAs specific for Asn, Asp, His and Tyr, leading to the replacement of guanine-34 at the wobble position by the, hypermodified base queuine. In prokaryotes TGT catalyzes the exchange of, guanine-34 with the queuine (.)precursor 7-aminomethyl-7-deazaguanine, (preQ1). The crystal structure of TGT from Zymomonas mobilis was solved by, multiple isomorphous replacement and refined to a crystallographic, R-factor of 19% at 1.85 angstrom resolution. The structure consists of an, irregular (beta/alpha)8-barrel with a tightly attached C-terminal, zinc-containing subdomain. The packing of the subdomain against the barrel, is mediated by an alpha-helix, located close to the C-terminus, which, displaces the eighth helix of the barrel. The structure of TGT in complex, with preQ1 suggests a binding mode for tRNA where the phosphate backbone, interacts with the zinc subdomain and the U33G34U35 sequence is recognized, by the barrel. This model for tRNA binding is consistent with a base, exchange mechanism involving a covalent tRNA-enzyme intermediate. This, structure is the first example of a (beta/alpha)-barrel protein, interacting specifically with a nucleic acid.
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<StructureSection load='1pud' size='340' side='right'caption='[[1pud]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1pud]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Zymomonas_mobilis Zymomonas mobilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PUD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PUD FirstGlance]. <br>
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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]] 1.85&#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=ZN:ZINC+ION'>ZN</scene></td></tr>
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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=1pud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pud OCA], [https://pdbe.org/1pud PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pud RCSB], [https://www.ebi.ac.uk/pdbsum/1pud PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pud ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/TGT_ZYMMO TGT_ZYMMO] Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). After this exchange, a cyclopentendiol moiety is attached to the 7-aminomethyl group of 7-deazaguanine, resulting in the hypermodified nucleoside queuosine (Q) (7-(((4,5-cis-dihydroxy-2-cyclopenten-1-yl)amino)methyl)-7-deazaguanosine).[HAMAP-Rule:MF_00168]
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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/pu/1pud_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=1pud ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1PUD is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Zymomonas_mobilis Zymomonas mobilis] with ZN as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Queuine_tRNA-ribosyltransferase Queuine tRNA-ribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.29 2.4.2.29] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1PUD OCA].
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*[[TRNA-guanine transglycosylase 3D structures|TRNA-guanine transglycosylase 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Crystal structure of tRNA-guanine transglycosylase: RNA modification by base exchange., Romier C, Reuter K, Suck D, Ficner R, EMBO J. 1996 Jun 3;15(11):2850-7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8654383 8654383]
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[[Category: Large Structures]]
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[[Category: Queuine tRNA-ribosyltransferase]]
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[[Category: Single protein]]
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[[Category: Zymomonas mobilis]]
[[Category: Zymomonas mobilis]]
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[[Category: Ficner, R.]]
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[[Category: Ficner R]]
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[[Category: Reuter, K.]]
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[[Category: Reuter K]]
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[[Category: Romier, C.]]
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[[Category: Romier C]]
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[[Category: Suck, D.]]
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[[Category: Suck D]]
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[[Category: ZN]]
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[[Category: glycosyltransferase]]
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[[Category: transferase]]
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[[Category: trna-modifying enzyme]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 00:07:45 2007''
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Current revision

TRNA-GUANINE TRANSGLYCOSYLASE

PDB ID 1pud

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