3mkj

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{{Seed}}
 
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[[Image:3mkj.jpg|left|200px]]
 
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==Methionine gamma-lyase from Citrobacter freundii with pyridoximine-5'-phosphate==
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The line below this paragraph, containing "STRUCTURE_3mkj", creates the "Structure Box" on the page.
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<StructureSection load='3mkj' size='340' side='right'caption='[[3mkj]], [[Resolution|resolution]] 1.65&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'>[[3mkj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Citrobacter_freundii Citrobacter freundii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MKJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3MKJ 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]] 1.65&#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=CSO:S-HYDROXYCYSTEINE'>CSO</scene>, <scene name='pdbligand=PZP:[5-HYDROXY-4-(IMINOMETHYL)-6-METHYL-PYRIDIN-3-YL]METHYL+DIHYDROGEN+PHOSPHATE'>PZP</scene></td></tr>
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{{STRUCTURE_3mkj| PDB=3mkj | 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=3mkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mkj OCA], [https://pdbe.org/3mkj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3mkj RCSB], [https://www.ebi.ac.uk/pdbsum/3mkj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3mkj ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q84AR1_CITFR Q84AR1_CITFR]
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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/mk/3mkj_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=3mkj 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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Pyridoxal 5'-phosphate (PLP) dependent methionine gamma-lyase catalyzes the breakdown of L-methionine to alpha-ketobutyric acid, methanethiol and ammonia. This enzyme, present in anaerobic microorganisms, has biomedical interest both for its activity as antitumor agent, depleting methionine supply in methionine-dependent cancers, and as target in the treatment of human pathogen infections, activating the pro-drug trifluoromethionine. To validate the structure of the enzyme from Citrobacter freundii, crystallized from monomethyl ether polyethylene glycol 2000, for the development of lead compounds, the reactivity of the crystalline enzyme towards L-methionine, substrate analogs and inhibitors was determined by polarized absorption microspectrophotometry. Spectral data were also collected for enzyme crystals, grown in monomethyl ether polyethylene glycol 2000 in the presence of ammonium sulfate. The three-dimensional structure of these enzyme crystals, solved at 1.65A resolution with R(free) 23.2%, revealed the surprising absence of the aldimine bond between the active site Lys210 and PLP. Different hypothesis are proposed and discussed in the light of spectral and structural data, pointing out to the relevance of the complementarity between X-ray crystallography and single crystal spectroscopy for the understanding of biological mechanisms at molecular level.
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===Methionine gamma-lyase from Citrobacter freundii with pyridoximine-5'-phosphate===
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Exploring methionine gamma-lyase structure-function relationship via microspectrophotometry and X-ray crystallography.,Ronda L, Bazhulina NP, Morozova EA, Revtovich SV, Chekhov VO, Nikulin AD, Demidkina TV, Mozzarelli A Biochim Biophys Acta. 2010 Jul 1. PMID:20601224<ref>PMID:20601224</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 3mkj" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_20601224}}, adds the Publication Abstract to the page
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*[[Methionine gamma-lyase 3D structures|Methionine gamma-lyase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 20601224 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_20601224}}
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__TOC__
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</StructureSection>
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==About this Structure==
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3MKJ is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Citrobacter_freundii Citrobacter freundii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MKJ OCA].
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==Reference==
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<ref group="xtra">PMID:20601224</ref><references group="xtra"/>
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[[Category: Citrobacter freundii]]
[[Category: Citrobacter freundii]]
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[[Category: Methionine gamma-lyase]]
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[[Category: Large Structures]]
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[[Category: Demidkina, T V.]]
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[[Category: Demidkina TV]]
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[[Category: Morozova, E A.]]
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[[Category: Morozova EA]]
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[[Category: Nikulin, A D.]]
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[[Category: Nikulin AD]]
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[[Category: Revtovich, S V.]]
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[[Category: Revtovich SV]]
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[[Category: Lyase]]
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[[Category: Plp-dependent enzyme]]
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[[Category: Pyridoxal-5'-phosphate]]
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[[Category: X-ray damage]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 11 23:56:52 2010''
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Current revision

Methionine gamma-lyase from Citrobacter freundii with pyridoximine-5'-phosphate

PDB ID 3mkj

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