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==Xaa-Pro peptidase from Deinococcus radiodurans, Zinc bound==
==Xaa-Pro peptidase from Deinococcus radiodurans, Zinc bound==
<StructureSection load='5giq' size='340' side='right' caption='[[5giq]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
<StructureSection load='5giq' size='340' side='right'caption='[[5giq]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[5giq]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Deira Deira]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GIQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GIQ FirstGlance]. <br>
<table><tr><td colspan='2'>[[5giq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans_R1 Deinococcus radiodurans R1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GIQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GIQ FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5cdv|5cdv]], [[5cdl|5cdl]], [[5giu|5giu]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">DR_1246 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243230 DEIRA])</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=5giq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5giq OCA], [https://pdbe.org/5giq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5giq RCSB], [https://www.ebi.ac.uk/pdbsum/5giq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5giq ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5giq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5giq OCA], [http://pdbe.org/5giq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5giq RCSB], [http://www.ebi.ac.uk/pdbsum/5giq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5giq ProSAT]</span></td></tr>
</table>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q9RUY4_DEIRA Q9RUY4_DEIRA]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
M24B peptidases cleaving Xaa-Pro bond in dipeptides are prolidases whereas those cleaving this bond in longer peptides are aminopeptidases-P. Bacteria have small aminopeptidases-P (36-39 kDa), which are diverged from canonical aminopeptidase-P of Escherichia coli (50 kDa). Structure-function studies of small aminopeptidases-P are lacking. We report crystal structures of small aminopeptidases-P from E. coli and Deinococcus radiodurans, and report substrate-specificities of these proteins and their ortholog from Mycobacterium tuberculosis. These are aminopeptidases-P, structurally close to small prolidases except for absence of dipeptide-selectivity loop. We noticed absence of this loop and conserved arginine in canonical archaeal prolidase (Maher et al., Biochemistry. 43, 2004, 2771-2783) and questioned its classification. Our enzymatic assays show that this enzyme is an aminopeptidase-P. Further, our mutagenesis studies illuminate importance of DXRY sequence motif in bacterial small aminopeptidases-P and suggest common evolutionary origin with human XPNPEP1/XPNPEP2. Our analyses reveal sequence/structural features distinguishing small aminopeptidases-P from other M24B peptidases.
Structures and activities of widely conserved small prokaryotic aminopeptidases-P clarify classification of M24B peptidases.,Are VN, Kumar A, Goyal VD, Gotad SS, Ghosh B, Gadre R, Jamdar SN, Makde RD Proteins. 2018 Dec 11. doi: 10.1002/prot.25641. PMID:30536999<ref>PMID:30536999</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5giq" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Deira]]
[[Category: Deinococcus radiodurans R1]]
[[Category: Are, V N]]
[[Category: Large Structures]]
[[Category: Ghosh, B]]
[[Category: Are VN]]
[[Category: Jamdar, S N]]
[[Category: Ghosh B]]
[[Category: Kumar, A]]
[[Category: Jamdar SN]]
[[Category: Makde, R D]]
[[Category: Kumar A]]
[[Category: Singh, R]]
[[Category: Makde RD]]
[[Category: Hydrolase]]
[[Category: Singh R]]
[[Category: M24b fold]]
[[Category: Proline-specific]]
[[Category: Xaa-pro peptidase]]
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