8am6 | pdb_00008am6

Cyclohexanone dehydrogenase (CDH) from Alicycliphilus denitrificans K601 complexed with dehydrogenated substrate cyclohex-2-en-1-one - inactive mutant (Y195F)

spinqualitylabelsall models 8am6, resolution 1.33Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 8am6 is a 2 chain structure with sequence from Alicycliphilus denitrificans K601. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 1.33Å Ligands: A2Q, FAD, GOL, SO4 Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function F4G7N3_ALIDK Publication Abstract from PubMed The selective alpha,beta-desaturation of cyclic carbonyl compounds, which are found in the core of many steroid and bioactive molecules, using green chemistry is highly desirable. To achieve this task, we have for the first time described and solved the de novo structure of a member of the cyclohexanone dehydrogenase class of enzymes. The breadth of substrate specificity was investigated by assaying the cyclohexanone dehydrogenase, from Alicycliphilus denitrificans, against several cyclic ketones, lactones and lactams. To investigate substrate binding, a catalytic variant, Y195F, was generated and used to obtain a crystallographic complex with the natural substrate, cyclohexanone. This revealed substrate-active site interactions, as well as the proximity of the cofactor, flavin adenine dinucleotide, and enabled us to propose a mechanistic function to key amino acids. We then used molecular dynamic simulations to guide design to add functionality to the cyclohexanone dehydrogenase enzyme. The resulting W113A variant had overall improved enzyme activity and substrate scope, i.e., accepting the bulkier carbonyl compound, dihydrocoumarin. Structural analysis of the W113A variant revealed a broader, more open active site, which helped explain the modified substrate specificity. This work paves the way for future bespoke regioselective alpha,beta-desaturation in the synthesis of important bioactive molecules via rational enzyme engineering. Rational design of a cyclohexanone dehydrogenase for enhanced alpha,beta-desaturation and substrate specificity.,Singh W, Brown NL, McCue HV, Marriott SR, Wilson RC, Perry J, Turkenburg JP, Dubey KD, Prior SH, Carnell AJ, Taylor EJ, Black GW Chem Sci. 2024 Feb 21;15(13):4969-4980. doi: 10.1039/d3sc04009g. eCollection 2024 , Mar 27. PMID:38550701 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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