View source for 7ne5


==catalytically non active S532A mutant of oligopeptidase B from S. proteomaculans with modified hinge region==
<StructureSection load='7ne5' size='340' side='right'caption='[[7ne5]], [[Resolution|resolution]] 1.88&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[7ne5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Serratia_proteamaculans Serratia proteamaculans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NE5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NE5 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]] 1.88&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SPM:SPERMINE'>SPM</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=7ne5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ne5 OCA], [https://pdbe.org/7ne5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ne5 RCSB], [https://www.ebi.ac.uk/pdbsum/7ne5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ne5 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/B3VI58_SERPR B3VI58_SERPR] 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Oligopeptidase B (OpB) is a two-domain, trypsin-like serine peptidase belonging to the S9 prolyloligopeptidase (POP) family. Two domains are linked by a hinge region that participates in the transition of the enzyme between two major states-closed and open-in which domains and residues of the catalytic triad are located close to each other and separated, respectively. In this study, we described, for the first time, a structure of OpB from bacteria obtained for an enzyme from Serratia proteomaculans with a modified hinge region (PSPmod). PSPmod was crystallized in a conformation characterized by a disruption of the catalytic triad together with a domain arrangement intermediate between open and closed states found in crystals of ligand-free and inhibitor-bound POP, respectively. Two additional derivatives of PSPmod were crystallized in the same conformation. Neither wild-type PSP nor its corresponding mutated variants were susceptible to crystallization, indicating that the hinge region modification was key in the crystallization process. The second key factor was suggested to be polyamine spermine since all crystals were grown in its presence. The influences of the hinge region modification and spermine on the conformational state of PSP in solution were evaluated by small-angle X-ray scattering. SAXS showed that, in solution, wild-type PSP adopted the open state, spermine caused the conformational transition to the intermediate state, and spermine-free PSPmod contained molecules in the open and intermediate conformations in dynamic equilibrium.

First Crystal Structure of Bacterial Oligopeptidase B in an Intermediate State: The Roles of the Hinge Region Modification and Spermine.,Petrenko DE, Timofeev VI, Britikov VV, Britikova EV, Kleymenov SY, Vlaskina AV, Kuranova IP, Mikhailova AG, Rakitina TV Biology (Basel). 2021 Oct 9;10(10). pii: biology10101021. doi:, 10.3390/biology10101021. PMID:34681120<ref>PMID:34681120</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 7ne5" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Serratia proteamaculans]]
[[Category: Dorovatovskiy PV]]
[[Category: Lazarenko VA]]
[[Category: Mikhailova AG]]
[[Category: Nikolaeva AY]]
[[Category: Petrenko DE]]
[[Category: Rakitina TV]]
[[Category: Timofeev VI]]
[[Category: Vlaskina AV]]