3eke

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[[Image:3eke.png|left|200px]]
 
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==Crystal structure of IBV X-domain at pH 5.6==
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The line below this paragraph, containing "STRUCTURE_3eke", creates the "Structure Box" on the page.
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<StructureSection load='3eke' size='340' side='right'caption='[[3eke]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3eke]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Avian_infectious_bronchitis_virus_(strain_Beaudette) Avian infectious bronchitis virus (strain Beaudette)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EKE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EKE 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]] 2.1&#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=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>
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{{STRUCTURE_3eke| PDB=3eke | SCENE= }}
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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=3eke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eke OCA], [https://pdbe.org/3eke PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eke RCSB], [https://www.ebi.ac.uk/pdbsum/3eke PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eke ProSAT]</span></td></tr>
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</table>
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===Crystal structure of IBV X-domain at pH 5.6===
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== Function ==
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[https://www.uniprot.org/uniprot/R1AB_IBVB R1AB_IBVB] The replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products.<ref>PMID:11413307</ref> The papain-like proteinase (PL-PRO) is responsible for the cleavages located at the N-terminus of replicase polyprotein. Activity of PL-PRO is dependent on zinc (By similarity).<ref>PMID:11413307</ref> The main proteinase 3CL-PRO is responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK (By similarity).<ref>PMID:11413307</ref> The peptide p16 might be involved in the EGF signaling pathway.<ref>PMID:11413307</ref> The helicase which contains a zinc finger structure displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity. Its ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G) (By similarity).<ref>PMID:11413307</ref> The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction (By similarity).<ref>PMID:11413307</ref> Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter (By similarity).<ref>PMID:11413307</ref> Nsp9 is a ssRNA-binding protein (By similarity).<ref>PMID:11413307</ref> NendoU is a Mn(2+)-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond (By similarity).<ref>PMID:11413307</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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The line below this paragraph, {{ABSTRACT_PUBMED_19177346}}, adds the Publication Abstract to the page
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Check<jmol>
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(as it appears on PubMed at http://www.pubmed.gov), where 19177346 is the PubMed ID number.
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ek/3eke_consurf.spt"</scriptWhenChecked>
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{{ABSTRACT_PUBMED_19177346}}
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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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==About this Structure==
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</jmolCheckbox>
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[[3eke]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Viruses Viruses]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EKE OCA].
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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=3eke ConSurf].
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<div style="clear:both"></div>
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==Reference==
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== References ==
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<ref group="xtra">PMID:019177346</ref><references group="xtra"/>
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<references/>
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[[Category: Viruses]]
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__TOC__
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[[Category: Hansen, G.]]
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</StructureSection>
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[[Category: Hilgenfeld, R.]]
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[[Category: Large Structures]]
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[[Category: Piotrowski, Y.]]
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[[Category: Hansen G]]
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[[Category: Adrp]]
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[[Category: Hilgenfeld R]]
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[[Category: Coronavirus]]
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[[Category: Piotrowski Y]]
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[[Category: Hydrolase]]
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[[Category: Ibv]]
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[[Category: Macro domain]]
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[[Category: Nsp3]]
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[[Category: Rna-binding]]
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[[Category: X-domain]]
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Current revision

Crystal structure of IBV X-domain at pH 5.6

PDB ID 3eke

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