2zal

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[[Image:2zal.gif|left|200px]]<br /><applet load="2zal" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2zal, resolution 1.90&Aring;" />
 
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'''Crystal structure of E. coli isoaspartyl aminopeptidase/L-asparaginase in complex with L-aspartate'''<br />
 
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==Overview==
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==Crystal structure of E. coli isoaspartyl aminopeptidase/L-asparaginase in complex with L-aspartate==
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The crystal structure of Escherichia coli isoaspartyl, aminopeptidase/asparaginase (EcAIII), an enzyme belonging to the, N-terminal nucleophile (Ntn)-hydrolases family, has been determined at, 1.9-A resolution for a complex obtained by cocrystallization with, l-aspartate, which is a product of both enzymatic reactions catalyzed by, EcAIII. The enzyme is a dimer of heterodimers, (alphabeta)(2). The, (alphabeta) heterodimer, which arises by autoproteolytic cleavage of the, immature protein, exhibits an alphabetabetaalpha-sandwich fold, typical, for Ntn-hydrolases. The asymmetric unit contains one copy of the, EcAIII.Asp complex, with clearly visible l-aspartate ligands, one bound in, each of the two active sites of the enzyme. The l-aspartate ligand is, located near Thr(179), the N-terminal residue of subunit beta liberated in, the autoproteolytic event. Structural comparisons with the free form of, EcAIII reveal that there are no major rearrangements of the active site, upon aspartate binding. Although the ligand binding mode is similar to, that observed in an l-aspartate complex of the related enzyme human, aspartylglucosaminidase, the architecture of the EcAIII active site sheds, light on the question of substrate specificity and explains why EcAIII is, not able to hydrolyze glycosylated asparagine substrates.
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<StructureSection load='2zal' size='340' side='right'caption='[[2zal]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2zal]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1seo 1seo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZAL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZAL 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]] 1.9&#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=ASP:ASPARTIC+ACID'>ASP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
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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=2zal FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zal OCA], [https://pdbe.org/2zal PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zal RCSB], [https://www.ebi.ac.uk/pdbsum/2zal PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zal ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/IAAA_ECOLI IAAA_ECOLI] Degrades proteins damaged by L-isoaspartyl residue formation (also known as beta-Asp residues). Degrades L-isoaspartyl-containing di- and maybe also tripeptides. Also has L-asparaginase activity, although this may not be its principal function.<ref>PMID:11988085</ref> May be involved in glutathione, and possibly other peptide, transport, although these results could also be due to polar effects of disruption.<ref>PMID:11988085</ref>
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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/za/2zal_consurf.spt"</scriptWhenChecked>
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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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</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=2zal 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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The crystal structure of Escherichia coli isoaspartyl aminopeptidase/asparaginase (EcAIII), an enzyme belonging to the N-terminal nucleophile (Ntn)-hydrolases family, has been determined at 1.9-A resolution for a complex obtained by cocrystallization with l-aspartate, which is a product of both enzymatic reactions catalyzed by EcAIII. The enzyme is a dimer of heterodimers, (alphabeta)(2). The (alphabeta) heterodimer, which arises by autoproteolytic cleavage of the immature protein, exhibits an alphabetabetaalpha-sandwich fold, typical for Ntn-hydrolases. The asymmetric unit contains one copy of the EcAIII.Asp complex, with clearly visible l-aspartate ligands, one bound in each of the two active sites of the enzyme. The l-aspartate ligand is located near Thr(179), the N-terminal residue of subunit beta liberated in the autoproteolytic event. Structural comparisons with the free form of EcAIII reveal that there are no major rearrangements of the active site upon aspartate binding. Although the ligand binding mode is similar to that observed in an l-aspartate complex of the related enzyme human aspartylglucosaminidase, the architecture of the EcAIII active site sheds light on the question of substrate specificity and explains why EcAIII is not able to hydrolyze glycosylated asparagine substrates.
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==About this Structure==
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Crystal structure of isoaspartyl aminopeptidase in complex with L-aspartate.,Michalska K, Brzezinski K, Jaskolski M J Biol Chem. 2005 Aug 5;280(31):28484-91. Epub 2005 Jun 9. PMID:15946951<ref>PMID:15946951</ref>
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2ZAL is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with <scene name='pdbligand=NA:'>NA</scene>, <scene name='pdbligand=CA:'>CA</scene>, <scene name='pdbligand=CL:'>CL</scene>, <scene name='pdbligand=ASP:'>ASP</scene> and <scene name='pdbligand=TRS:'>TRS</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. This structure superseeds the now removed PDB entry 1SEO. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZAL OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Crystal structure of isoaspartyl aminopeptidase in complex with L-aspartate., Michalska K, Brzezinski K, Jaskolski M, J Biol Chem. 2005 Aug 5;280(31):28484-91. Epub 2005 Jun 9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15946951 15946951]
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</div>
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[[Category: Escherichia coli]]
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<div class="pdbe-citations 2zal" style="background-color:#fffaf0;"></div>
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[[Category: Protein complex]]
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[[Category: Brzezinski, K.]]
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[[Category: Jaskolski, M.]]
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[[Category: Michalska, K.]]
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[[Category: ASP]]
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[[Category: CA]]
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[[Category: CL]]
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[[Category: NA]]
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[[Category: TRS]]
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[[Category: asparaginase]]
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[[Category: autoproteolysis]]
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[[Category: isoaspartyl peptidase]]
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[[Category: l-aspartate/calcium cluster]]
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[[Category: ntn-hydrolase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 12:20:52 2008''
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==See Also==
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*[[Aminopeptidase 3D structures|Aminopeptidase 3D structures]]
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*[[Asparaginase 3D structures|Asparaginase 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Escherichia coli K-12]]
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[[Category: Large Structures]]
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[[Category: Brzezinski K]]
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[[Category: Jaskolski M]]
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[[Category: Michalska K]]

Current revision

Crystal structure of E. coli isoaspartyl aminopeptidase/L-asparaginase in complex with L-aspartate

PDB ID 2zal

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