Investigating performance of transformer health index in machine learning application using dominant features

Transformer Health Index (HI) has become a standard tool for performing transformer health evaluations. Due to economic constraints, the recently published paper focuses on developing various techniques to identify the most dominant features for transformer HI prediction. However, the fundamental problems concerning their input features remain unresolved since most suggested features contradict industry practice. In this paper, the primary objective is to investigate the performance of the transformer HI by developing and utilizing only dominant features following the industry recommendation. The investigated dominant features in this paper using 1) CO2/CO ratio and 2) the Incipient fault for detecting temperature abnormalities, and 3) the Dissipation Factor (DF) for detecting oil contamination. The performance validation is carried out using various machine learning (ML) classifiers. Also, the performance of the ML model is validated based on 10-fold type cross-validation to avoid biases in the experiment. As a result, the proposed Artificial Neural Network (ANN) network utilizing the investigated dominant features following the industry practice has produced the highest average accuracy of 80.09% than others ML techniques as a classifier. Hence, additional studies to complement the investigated dominant features may be considered for the subsequent investigation.

Clues to reaction specificity in PLP-dependent fold type I enzymes of monosaccharide biosynthesis

Novel functions can emerge in an enzyme family while conserving catalytic mechanism, motif or fold. PLP-dependent enzymes have evolved into seven fold types and catalyse diverse reactions using the same mechanism for the formation of external aldimine. Nucleotide sugar aminotransferases (NSATs) and dehydratases (NSDs) belong to fold type I and mediate the biosynthesis of several monosaccharides. NSATs use diverse substrates but are highly selective to the C3 or C4 carbon to which amine group is transferred. Factors responsible for reaction specificity in NSDs are known but remain unexplored in NSATs. Profile HMMs were able to identify NSATs but could not capture reaction specificity. A search for discriminating features led to the discovery of a sequence motif that is located near the pyranose binding site suggesting their role in imparting reaction specificity. Using a position weight matrix for this motif, we were able to assign reaction specificity to a large number of NSATs. Residues which upon mutation could convert NSD to NSAT have been reported in literature and we deduced that these are not conserved. This suggested the occurrence of non-generic family specific mutations underlying the evolution of dehydratases. Inferences from this analysis set way for future experiments that can shed light on mechanisms of functional diversification in enzymes of fold type I.

The Uncommon Active Site of D-Amino Acid Transaminase from Haliscomenobacter hydrossis: Biochemical and Structural Insights into the New Enzyme

Among industrially important pyridoxal-5’-phosphate (PLP)-dependent transaminases of fold type IV D-amino acid transaminases are the least studied. However, the development of cascade enzymatic processes, including the synthesis of D-amino acids, renewed interest in their study. Here, we describe the identification, biochemical and structural characterization of a new D-amino acid transaminase from Haliscomenobacter hydrossis (Halhy). The new enzyme is strictly specific towards D-amino acids and their keto analogs; it demonstrates one of the highest rates of transamination between D-glutamate and pyruvate. We obtained the crystal structure of the Halhy in the holo form with the protonated Schiff base formed by the K143 and the PLP. Structural analysis revealed a novel set of the active site residues that differ from the key residues forming the active sites of the previously studied D-amino acids transaminases. The active site of Halhy includes three arginine residues, one of which is unique among studied transaminases. We identified critical residues for the Halhy catalytic activity and suggested functions of the arginine residues based on the comparative structural analysis, mutagenesis, and molecular modeling simulations. We suggested a strong positive charge in the O-pocket and the unshaped P-pocket as a structural code for the D-amino acid specificity among transaminases of PLP fold type IV. Characteristics of Halhy complement our knowledge of the structural basis of substrate specificity of D-amino acid transaminases and the sequence-structure-function relationships in these enzymes.

The evolutionary history of topological variations in the CPA/AT transporters

CPA/AT transporters are made up of scaffold and a core domain. The core domain contains two non-canonical helices (broken or reentrant) that mediate the transport of ions, amino acids or other charged compounds. During evolution, these transporters have undergone substantial changes in structure, topology and function. To shed light on these structural transitions, we create models for all families using an integrated topology annotation method. We find that the CPA/AT transporters can be classified into four fold-types based on their structure; (1) the CPA-broken fold-type, (2) the CPA-reentrant fold-type, (3) the BART fold-type, and (4) a previously not described fold-type, the Reentrant-Helix-Reentrant fold-type. Several topological transitions are identified, including the transition between a broken and reentrant helix, one transition between a loop and a reentrant helix, complete changes of orientation, and changes in the number of scaffold helices. These transitions are mainly caused by gene duplication and shuffling events. Structural models, topology information and other details are presented in a searchable database, CPAfold (cpafold.bioinfo.se).

Probing the role of the residues in the active site of the transaminase from Thermobaculum terrenum

Creating biocatalysts for (R)-selective amination effectively is highly desirable in organic synthesis. Despite noticeable progress in the engineering of (R)-amine activity in pyridoxal-5’-phosphate-dependent transaminases of fold type IV, the specialization of the activity is still an intuitive task, as there is poor understanding of sequence-structure-function relationships. In this study, we analyzed this relationship in transaminase from Thermobaculum terrenum, distinguished by expanded substrate specificity and activity in reactions with L-amino acids and (R)-(+)-1-phenylethylamine using α-ketoglutarate and pyruvate as amino acceptors. We performed site-directed mutagenesis to create a panel of the enzyme variants, which differ in the active site residues from the parent enzyme to a putative transaminase specific to (R)-primary amines. The variants were examined in the overall transamination reactions and half-reaction with (R)-(+)-1-phenylethylamine. A structural analysis of the most prominent variants revealed a spatial reorganization in the active sites, which caused changes in activity. Although the specialization to (R)-amine transaminase was not implemented, we succeeded in understanding the role of the particular active site residues in expanding substrate specificity of the enzyme. We showed that the specificity for (R)-(+)-1-phenylethylamine in transaminase from T. terrenum arises without sacrificing the specificity for L-amino acids and α-ketoglutarate and in consensus with it.

FACTORS INFLUENCING ADAPTATION OF INNOVATIONS IN SMALL RUMINANT PRODUCTION IN THE TRC3 REGION IN TURKEY

This study investigated the socio-economic factors affecting the adoption of innovation in small ruminant production in TRC3 region in Turkey. Stratified random sampling technique was used to select 366 small ruminant farmers from the region. Semi-structured questionnaire was used to collect main data for the study. Data collected were analyzed using descritive statistics, t-tests and multiple linear regression analysis. Results of the study showed that the farmers had a mean age of 45,8 years and 97,0% were male. Traditional production was dominant among the small ruminant producers and as the number of animal increases the income increases ( p< 0,01). Out of twelve independent variables, eight of them were statistically significant on multiple linear regression analysis. The F-statistics was statistically significant at 1% level on communication behavior and animal health practices; 5% level on age, breeding reasons, milking way, produced products and fold type. The coefficient of multiple determination (R2) value was estimated to be 0,470 this implies that 47,0% of total variation in the output of small ruminant production was accounted for by the independent variables that were fitted into the model. The main problems of small ruminant production were high feed prices, high deaths of lamps/goat, insufficient use of pastures because of security problems and lack of shepherd due to young people unwillingness to live in rural areas.

A Novel, Easy Assay Method for Human Cysteine Sulfinic Acid Decarboxylase

Cysteine sulfinic acid decarboxylase catalyzes the last step of taurine biosynthesis in mammals, and belongs to the fold type I superfamily of pyridoxal-5′-phosphate (PLP)-dependent enzymes. Taurine (2-aminoethanesulfonic acid) is the most abundant free amino acid in animal tissues; it is highly present in liver, kidney, muscle, and brain, and plays numerous biological and physiological roles. Despite the importance of taurine in human health, human cysteine sulfinic acid decarboxylase has been poorly characterized at the biochemical level, although its three-dimensional structure has been solved. In the present work, we have recombinantly expressed and purified human cysteine sulfinic acid decarboxylase, and applied a simple spectroscopic direct method based on circular dichroism to measure its enzymatic activity. This method gives a significant advantage in terms of simplicity and reduction of execution time with respect to previously used assays, and will facilitate future studies on the catalytic mechanism of the enzyme. We determined the kinetic constants using L-cysteine sulfinic acid as substrate, and also showed that human cysteine sulfinic acid decarboxylase is capable to catalyze the decarboxylation—besides its natural substrates L-cysteine sulfinic acid and L-cysteic acid—of L-aspartate and L-glutamate, although with much lower efficiency.