1jym

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[[Image:1jym.png|left|200px]]
 
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==Crystals of Peptide Deformylase from Plasmodium falciparum with Ten Subunits per Asymmetric Unit Reveal Critical Characteristics of the Active Site for Drug Design==
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The line below this paragraph, containing "STRUCTURE_1jym", creates the "Structure Box" on the page.
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<StructureSection load='1jym' size='340' side='right'caption='[[1jym]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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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'>[[1jym]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_falciparum Plasmodium falciparum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JYM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JYM FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 2.8&#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=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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{{STRUCTURE_1jym| PDB=1jym | 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=1jym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jym OCA], [https://pdbe.org/1jym PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jym RCSB], [https://www.ebi.ac.uk/pdbsum/1jym PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jym ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q8I372_PLAF7 Q8I372_PLAF7]
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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/jy/1jym_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1jym ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Peptide deformylase catalyzes the deformylation reaction of the amino terminal fMet residue of newly synthesized proteins in bacteria, and most likely in Plasmodium falciparum, and has therefore been identified as a potential antibacterial and antimalarial drug target. The structure of P. falciparum peptide deformylase, determined at 2.8 A resolution with ten subunits per asymmetric unit, is similar to the bacterial enzyme with the residues involved in catalysis, the position of the bound metal ion, and a catalytically important water structurally conserved between the two enzymes. However, critical differences in the substrate binding region explain the poor affinity of E. coli deformylase inhibitors and substrates toward the Plasmodium enzyme. The Plasmodium structure serves as a guide for designing novel antimalarials.
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===Crystals of Peptide Deformylase from Plasmodium falciparum with Ten Subunits per Asymmetric Unit Reveal Critical Characteristics of the Active Site for Drug Design===
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Crystals of peptide deformylase from Plasmodium falciparum reveal critical characteristics of the active site for drug design.,Kumar A, Nguyen KT, Srivathsan S, Ornstein B, Turley S, Hirsh I, Pei D, Hol WG Structure. 2002 Mar;10(3):357-67. PMID:12005434<ref>PMID:12005434</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_12005434}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 1jym" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 12005434 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_12005434}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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[[1jym]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_falciparum Plasmodium falciparum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JYM OCA].
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==Reference==
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<ref group="xtra">PMID:12005434</ref><ref group="xtra">PMID:15010544</ref><references group="xtra"/>
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[[Category: Formylmethionine deformylase]]
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[[Category: Plasmodium falciparum]]
[[Category: Plasmodium falciparum]]
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[[Category: Hirsh, I.]]
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[[Category: Hirsh I]]
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[[Category: Hol, W G.J.]]
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[[Category: Hol WGJ]]
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[[Category: Kumar, A.]]
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[[Category: Kumar A]]
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[[Category: Nguyen, K T.]]
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[[Category: Nguyen KT]]
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[[Category: Ornstein, B.]]
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[[Category: Ornstein B]]
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[[Category: Pei, D.]]
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[[Category: Pei D]]
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[[Category: Srivathsan, S.]]
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[[Category: Srivathsan S]]
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[[Category: Turley, S.]]
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[[Category: Turley S]]
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[[Category: Deformylation]]
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[[Category: Hydrolase]]
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[[Category: Malaria]]
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[[Category: Metalloenzyme]]
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[[Category: Pdf]]
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[[Category: Plasmodium]]
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Current revision

Crystals of Peptide Deformylase from Plasmodium falciparum with Ten Subunits per Asymmetric Unit Reveal Critical Characteristics of the Active Site for Drug Design

PDB ID 1jym

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