3brm

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[[Image:3brm.png|left|200px]]
 
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==Crystal structure of the covalent complex between the Bacillus subtilis glutaminase YbgJ and 5-oxo-L-norleucine formed by reaction of the protein with 6-diazo-5-oxo-L-norleucine==
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The line below this paragraph, containing "STRUCTURE_3brm", creates the "Structure Box" on the page.
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<StructureSection load='3brm' size='340' side='right'caption='[[3brm]], [[Resolution|resolution]] 2.29&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'>[[3brm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BRM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BRM 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]] 2.29&#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=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=ONL:5-OXO-L-NORLEUCINE'>ONL</scene></td></tr>
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{{STRUCTURE_3brm| PDB=3brm | 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=3brm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3brm OCA], [https://pdbe.org/3brm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3brm RCSB], [https://www.ebi.ac.uk/pdbsum/3brm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3brm ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/GLSA1_BACSU GLSA1_BACSU]
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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/br/3brm_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=3brm 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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Glutaminases belong to the large superfamily of serine-dependent beta-lactamases and penicillin-binding proteins, and they catalyze the hydrolytic deamidation of L-glutamine to L-glutamate. In this work, we purified and biochemically characterized four predicted glutaminases from Escherichia coli (YbaS and YneH) and Bacillus subtilis (YlaM and YbgJ). The proteins demonstrated strict specificity to L-glutamine and did not hydrolyze D-glutamine or L-asparagine. In each organism, one glutaminase showed higher affinity to glutamine ( E. coli YbaS and B. subtilis YlaM; K m 7.3 and 7.6 mM, respectively) than the second glutaminase ( E. coli YneH and B. subtilis YbgJ; K m 27.6 and 30.6 mM, respectively). The crystal structures of the E. coli YbaS and the B. subtilis YbgJ revealed the presence of a classical beta-lactamase-like fold and conservation of several key catalytic residues of beta-lactamases (Ser74, Lys77, Asn126, Lys268, and Ser269 in YbgJ). Alanine replacement mutagenesis demonstrated that most of the conserved residues located in the putative glutaminase catalytic site are essential for activity. The crystal structure of the YbgJ complex with the glutaminase inhibitor 6-diazo-5-oxo- l-norleucine revealed the presence of a covalent bond between the inhibitor and the hydroxyl oxygen of Ser74, providing evidence that Ser74 is the primary catalytic nucleophile and that the glutaminase reaction proceeds through formation of an enzyme-glutamyl intermediate. Growth experiments with the E. coli glutaminase deletion strains revealed that YneH is involved in the assimilation of l-glutamine as a sole source of carbon and nitrogen and suggested that both glutaminases (YbaS and YneH) also contribute to acid resistance in E. coli.
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===Crystal structure of the covalent complex between the Bacillus subtilis glutaminase YbgJ and 5-oxo-L-norleucine formed by reaction of the protein with 6-diazo-5-oxo-L-norleucine===
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Functional and structural characterization of four glutaminases from Escherichia coli and Bacillus subtilis.,Brown G, Singer A, Proudfoot M, Skarina T, Kim Y, Chang C, Dementieva I, Kuznetsova E, Gonzalez CF, Joachimiak A, Savchenko A, Yakunin AF Biochemistry. 2008 May 27;47(21):5724-35. Epub 2008 May 6. PMID:18459799<ref>PMID:18459799</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 3brm" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_18459799}}, adds the Publication Abstract to the page
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*[[Glutaminase 3D structures|Glutaminase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 18459799 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18459799}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Bacillus subtilis subsp. subtilis str. 168]]
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[[3brm]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BRM OCA].
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[[Category: Large Structures]]
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[[Category: Dementieva I]]
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==Reference==
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[[Category: Joachimiak A]]
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<ref group="xtra">PMID:018459799</ref><references group="xtra"/>
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[[Category: Kim Y]]
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[[Category: Bacillus subtilis]]
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[[Category: Savchenko A]]
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[[Category: Glutaminase]]
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[[Category: Singer AU]]
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[[Category: Dementieva, I.]]
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[[Category: Vinokour E]]
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[[Category: Joachimiak, A.]]
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[[Category: Yakunin A]]
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[[Category: Kim, Y.]]
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[[Category: Savchenko, A.]]
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[[Category: Singer, A U.]]
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[[Category: Vinokour, E.]]
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[[Category: Yakunin, A.]]
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[[Category: Covalent complex]]
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[[Category: Don]]
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[[Category: Hydrolase]]
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[[Category: Ybas glutaminase]]
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Current revision

Crystal structure of the covalent complex between the Bacillus subtilis glutaminase YbgJ and 5-oxo-L-norleucine formed by reaction of the protein with 6-diazo-5-oxo-L-norleucine

PDB ID 3brm

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