View source for 6rtt


==Piperideine-6-carboxylate dehydrogenase from Streptomyces clavuligerus complexed with picolinic acid==
<StructureSection load='6rtt' size='340' side='right'caption='[[6rtt]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[6rtt]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_clavuligerus Streptomyces clavuligerus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RTT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6RTT 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]] 1.65&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6PC:PYRIDINE-2-CARBOXYLIC+ACID'>6PC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=6rtt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6rtt OCA], [https://pdbe.org/6rtt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6rtt RCSB], [https://www.ebi.ac.uk/pdbsum/6rtt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6rtt ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/O85725_STRCL O85725_STRCL] 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The core of beta-lactam antibiotics originates from amino acids of primary metabolism in certain microorganisms. beta-Lactam-producing bacteria, including Streptomyces clavuligerus, synthesize the precursor of the amino acid alpha-aminoadipic acid by the catabolism of lysine in two steps. The second reaction, the oxidation of piperideine-6-carboxylate (or its open-chain form alpha-aminoadipate semialdehyde) to alpha-aminoadipic acid, is catalysed by the NAD(+)-dependent enzyme piperideine-6-carboxylate dehydrogenase (P6CDH). This structural study, focused on ligand binding and catalysis, presents structures of P6CDH from S. clavuligerus in its apo form and in complexes with the cofactor NAD(+), the product alpha-aminoadipic acid and a substrate analogue, picolinic acid. P6CDH adopts the common aldehyde dehydrogenase fold, consisting of NAD-binding, catalytic and oligomerization domains. The product binds in the oxyanion hole, close to the catalytic residue Cys299. Clear density is observed for the entire cofactor, including the nicotinamide riboside, in the binary complex. NAD(+) binds in an extended conformation with its nicotinamide ring overlapping with the binding site of the carboxylate group of the product, implying that the conformation of the cofactor may change during catalysis. The binding site of the substrate analogue overlaps with that of the product, suggesting that the cyclic form of the substrate, piperideine-6-carboxylate, may be accepted as a substrate by the enzyme. The catalytic mechanism and the roles of individual residues are discussed in light of these results.

Structure and mechanism of piperideine-6-carboxylate dehydrogenase from Streptomyces clavuligerus.,Hasse D, Hulsemann J, Carlsson GH, Valegard K, Andersson I Acta Crystallogr D Struct Biol. 2019 Dec 1;75(Pt 12):1107-1118. doi:, 10.1107/S2059798319014852. Epub 2019 Nov 22. PMID:31793904<ref>PMID:31793904</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6rtt" style="background-color:#fffaf0;"></div>
== References ==
<references/>
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</StructureSection>
[[Category: Large Structures]]
[[Category: Streptomyces clavuligerus]]
[[Category: Andersson I]]
[[Category: Carlsson G]]
[[Category: Hasse D]]
[[Category: Huelsemann J]]