4e4j

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== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[4e4j]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Malacoplasma_penetrans_HF-2 Malacoplasma penetrans HF-2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E4J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E4J FirstGlance]. <br>
<table><tr><td colspan='2'>[[4e4j]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Malacoplasma_penetrans_HF-2 Malacoplasma penetrans HF-2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E4J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E4J FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
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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]] 2.3&#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=CL:CHLORIDE+ION'>CL</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4e4j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e4j OCA], [https://pdbe.org/4e4j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e4j RCSB], [https://www.ebi.ac.uk/pdbsum/4e4j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e4j ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4e4j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e4j OCA], [https://pdbe.org/4e4j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e4j RCSB], [https://www.ebi.ac.uk/pdbsum/4e4j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e4j ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
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[[https://www.uniprot.org/uniprot/Q8EVF6_MALP2 Q8EVF6_MALP2]]
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[https://www.uniprot.org/uniprot/Q8EVF6_MALP2 Q8EVF6_MALP2]
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The metabolism of arginine towards ATP synthesis has been considered a major source of energy for microorganisms such as Mycoplasma penetrans in anaerobic conditions. Additionally, this pathway has also been implicated in pathogenic and virulence mechanism of certain microorganisms, i.e. protection from acidic stress during infection. In this work we present the crystal structures of the three enzymes composing the gene cluster of the arginine deiminase pathway from M. penetrans: arginine deiminase (ADI), ornithine carbamoyltransferase (OTC) and carbamate kinase (CK). The arginine deiminase (ADI) structure has been refined to 2.3 A resolution in its apo-form, displaying an "open" conformation of the active site of the enzyme in comparison to previous complex structures with substrate intermediates. The active site pocket of ADI is empty, with some of the catalytic and binding residues far from their active positions, suggesting major conformational changes upon substrate binding. Ornithine carbamoyltransferase (OTC) has been refined in two crystal forms at 2.5 A and 2.6 A resolution, respectively, both displaying an identical dodecameric structure with a 23-point symmetry. The dodecameric structure of OTC represents the highest level of organization in this protein family and in M.penetrans it is constituted by a novel interface between the four catalytic homotrimers. Carbamate kinase (CK) has been refined to 2.5 A resolution and its structure is characterized by the presence of two ion sulfates in the active site, one in the carbamoyl phosphate binding site and the other in the beta-phosphate ADP binding pocket of the enzyme. The CK structure also shows variations in some of the elements that regulate the catalytic activity of the enzyme. The relatively low number of metabolic pathways and the relevance in human pathogenesis of Mycoplasma penetrans places the arginine deiminase pathway enzymes as potential targets to design specific inhibitors against this human parasite.
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Structural Characterization of the Enzymes Composing the Arginine Deiminase Pathway in Mycoplasma penetrans.,Gallego P, Planell R, Benach J, Querol E, Perez-Pons JA, Reverter D PLoS One. 2012;7(10):e47886. doi: 10.1371/journal.pone.0047886. Epub 2012 Oct 17. PMID:23082227<ref>PMID:23082227</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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<div class="pdbe-citations 4e4j" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>

Current revision

Crystal structure of arginine deiminase from Mycoplasma penetrans

PDB ID 4e4j

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