7cf6: Difference between revisions

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-'''Unreleased structure'''
-The entry 7cf6 is ON HOLD  until Paper Publication
+==Crystal structure of Beta-aspartyl dipeptidase from thermophilic keratin degrading Fervidobacterium islandicum AW-1 in complex with beta-Asp-Leu dipeptide==
+<StructureSection load='7cf6' size='340' side='right'caption='[[7cf6]], [[Resolution|resolution]] 2.75&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[7cf6]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Fervidobacterium_islandicum Fervidobacterium islandicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CF6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7CF6 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.75&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FWO:(2S)-2-[[(3S)-3-azanyl-4-oxidanyl-4-oxidanylidene-butanoyl]amino]-4-methyl-pentanoic+acid'>FWO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7cf6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7cf6 OCA], [https://pdbe.org/7cf6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7cf6 RCSB], [https://www.ebi.ac.uk/pdbsum/7cf6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7cf6 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/A0A1B0VPV0_FERIS A0A1B0VPV0_FERIS] Catalyzes the hydrolytic cleavage of a subset of L-isoaspartyl (L-beta-aspartyl) dipeptides. Used to degrade proteins damaged by L-isoaspartyl residues formation.[PIRNR:PIRNR001238]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The NA23_RS08100 gene of Fervidobacterium islandicum AW-1 encodes a keratin-degrading beta-aspartyl peptidase (FiBAP) that is highly expressed under starvation conditions. Herein, we expressed the gene in Escherichia coli, purified the recombinant enzyme to homogeneity, and investigated its function. The 318 kDa recombinant FiBAP enzyme exhibited maximal activity at 80 degrees C and pH 7.0 in the presence of Zn(2+). Size-exclusion chromatography revealed that the native enzyme is an octamer comprising a tetramer of dimers; this was further supported by determination of its crystal structure at 2.6 A resolution. Consistently, the structure of FiBAP revealed three additional salt bridges in each dimer, involving 12 ionic interactions that might contribute to its high thermostability. In addition, the co-crystal structure containing the substrate analog N-carbobenzoxy-beta-Asp-Leu at 2.7 A resolution revealed binuclear Zn(2+)-mediated substrate binding, suggesting that FiBAP is a hyperthermophilic type-I IadA, in accordance with sequence-based phylogenetic analysis. Indeed, complementation of a Leu auxotrophic E. coli mutant strain (DeltaiadA and DeltaleuB) with FiBAP enabled the mutant strain to grow on isoAsp-Leu peptides. Remarkably, LC-MS/MS analysis of soluble keratin hydrolysates revealed that FiBAP not only cleaves the C-terminus of isoAsp residues but also has a relatively broad substrate specificity toward alpha-peptide bonds. Moreover, heat shock-induced protein aggregates retarded bacterial growth, but expression of BAP alleviated the growth defect by degrading damaged proteins. Taken together, these results suggest that the viability of hyperthermophiles under stressful conditions may rely on the activity of BAP within cellular protein repair systems.
-Authors: Dhanasingh, I., La, J.W., Lee, D.W., Lee, S.H.
+Functional Characterization of Primordial Protein Repair Enzyme M38 Metallo-Peptidase From Fervidobacterium islandicum AW-1.,La JW, Dhanasingh I, Jang H, Lee SH, Lee DW Front Mol Biosci. 2020 Dec 17;7:600634. doi: 10.3389/fmolb.2020.600634., eCollection 2020. PMID:33392259<ref>PMID:33392259</ref>
-Description: Crystal structure of Beta-aspartyl dipeptidase from thermophilic keratin degrading Fervidobacterium islandicum AW-1 in complex with beta-Asp-Leu dipeptide
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Lee, D.W]]
+<div class="pdbe-citations 7cf6" style="background-color:#fffaf0;"></div>
-[[Category: Lee, S.H]]
-[[Category: Dhanasingh, I]]
+==See Also==
-[[Category: La, J.W]]
+*[[Isoaspartyl dipeptidase|Isoaspartyl dipeptidase]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Fervidobacterium islandicum]]
+[[Category: Large Structures]]
+[[Category: Dhanasingh I]]
+[[Category: La JW]]
+[[Category: Lee DW]]
+[[Category: Lee SH]]