2c77: Difference between revisions

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{{Seed}}
[[Image:2c77.png|left|200px]]


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==EF-Tu complexed with a GTP analog and the antibiotic GE2270 A==
The line below this paragraph, containing "STRUCTURE_2c77", creates the "Structure Box" on the page.
<StructureSection load='2c77' size='340' side='right'caption='[[2c77]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
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== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[2c77]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Planobispora_rosea Planobispora rosea] and [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2C77 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2C77 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]] 1.6&#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=BB6:(2Z)-2-AMINO-3-SULFANYLBUT-2-ENOIC+ACID'>BB6</scene>, <scene name='pdbligand=BB7:(2Z)-2-AMINO-4-METHOXY-3-SULFANYLBUT-2-ENOIC+ACID'>BB7</scene>, <scene name='pdbligand=BB8:(2S,3S)-BETA-HYDROXY-PHENYLALANINE'>BB8</scene>, <scene name='pdbligand=BB9:(2Z)-2-AMINO-3-SULFANYLPROP-2-ENOIC+ACID'>BB9</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MEN:N-METHYL+ASPARAGINE'>MEN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MH6:3-HYDROXY-2-IMINOPROPANOIC+ACID'>MH6</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
{{STRUCTURE_2c77|  PDB=2c77  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2c77 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2c77 OCA], [https://pdbe.org/2c77 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2c77 RCSB], [https://www.ebi.ac.uk/pdbsum/2c77 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2c77 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/EFTU2_THET8 EFTU2_THET8] This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.
== 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/c7/2c77_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=2c77 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Pulvomycin inhibits protein synthesis by preventing the formation of the ternary complex between elongation factor Tu (EF-Tu) x GTP and aa-tRNA. In this work, the crystal structure of Thermus thermophilus EF-Tu x pulvomycin in complex with the GTP analogue guanylyl imino diphosphate (GDPNP) at 1.4 A resolution reveals an antibiotic binding site extending from the domain 1-3 interface to domain 2, overlapping the domain 1-2-3 junction. Pulvomycin binding interferes with the binding of the 3'-aminoacyl group, the acceptor stem, and 5' end of tRNA. Only part of pulvomycin overlaps the binding site of GE2270 A, a domain 2-bound antibiotic of a structure unrelated to pulvomycin, which also hinders aa-tRNA binding. The structure of the T. thermophilus EF-Tu x GDPNP x GE2270 A complex at 1.6 A resolution shows that GE2270 A interferes with the binding of the 3'-aminoacyl group and part of the acceptor stem of aa-tRNA but not with the 5' end. Both compounds, pulvomycin more markedly, hinder the correct positioning of domain 1 over domains 2 and 3 that characterizes the active form of EF-Tu, while they affect the domain 1 switch regions that control the EF-Tu x GDP/GTP transitions in different ways. This work reveals how two antibiotics with different structures and binding modes can employ a similar mechanism of action.


===EF-TU COMPLEXED WITH A GTP ANALOG AND THE ANTIBIOTIC GE2270 A===
Structural basis of the action of pulvomycin and GE2270 A on elongation factor Tu.,Parmeggiani A, Krab IM, Okamura S, Nielsen RC, Nyborg J, Nissen P Biochemistry. 2006 Jun 6;45(22):6846-57. PMID:16734421<ref>PMID:16734421</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2c77" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_16734421}}, adds the Publication Abstract to the page
*[[Elongation factor 3D structures|Elongation factor 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 16734421 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_16734421}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
2C77 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2C77 OCA].
[[Category: Planobispora rosea]]
 
[[Category: Thermus thermophilus HB8]]
==Reference==
[[Category: Krab IM]]
<ref group="xtra">PMID:16734421</ref><references group="xtra"/>
[[Category: Nielsen RC]]
[[Category: Thermus thermophilus]]
[[Category: Nissen P]]
[[Category: DGTPase]]
[[Category: Nyborg J]]
[[Category: Krab, I M.]]
[[Category: Okamura S]]
[[Category: Nielsen, R C.]]
[[Category: Parmeggiani A]]
[[Category: Nissen, P.]]
[[Category: Nyborg, J.]]
[[Category: Okamura, S.]]
[[Category: Parmeggiani, A.]]
[[Category: Antibiotic]]
[[Category: Gtp-binding]]
[[Category: Gtpase]]
[[Category: Hydrolase]]
[[Category: Nucleotide-binding]]
[[Category: Phosphorylation]]
[[Category: Protein biosynthesis]]
[[Category: Protein synthesis]]
[[Category: Translation elongation factor]]
 
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Retrieved from "https://proteopedia.org/2c77"