Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores
β-Lactamase/transpeptidase-like superfamily proteins are serine proteases that use the Ser–Lys catalytic dyad to carry out their biological functions. Here, we investigate the three known families of β-lactamase/transpeptidase-like superfamily proteins, β-lactamase/D-Ala carboxypeptidase, glutaminas...
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MDPI AG
2025-04-01
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| Series: | Molecules |
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| Online Access: | https://www.mdpi.com/1420-3049/30/9/2019 |
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| author | Alexander I. Denesyuk Konstantin Denessiouk Mark S. Johnson Vladimir N. Uversky |
| author_facet | Alexander I. Denesyuk Konstantin Denessiouk Mark S. Johnson Vladimir N. Uversky |
| author_sort | Alexander I. Denesyuk |
| collection | DOAJ |
| description | β-Lactamase/transpeptidase-like superfamily proteins are serine proteases that use the Ser–Lys catalytic dyad to carry out their biological functions. Here, we investigate the three known families of β-lactamase/transpeptidase-like superfamily proteins, β-lactamase/D-Ala carboxypeptidase, glutaminase, and Dac-like, and describe the structural catalytic cores that govern the catalytic residues in these proteins. We show that the structural catalytic core of these proteins is a combination of three zones, the mutual three-dimensional arrangement of which correspondingly determines their belonging to one of seven and twenty-four established groups and subgroups. |
| format | Article |
| id | doaj-art-6474d84cf8824735b3aaa804a7e06d7e |
| institution | DOAJ |
| issn | 1420-3049 |
| language | English |
| publishDate | 2025-04-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Molecules |
| spelling | doaj-art-6474d84cf8824735b3aaa804a7e06d7e2025-08-20T02:59:08ZengMDPI AGMolecules1420-30492025-04-01309201910.3390/molecules30092019Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic CoresAlexander I. Denesyuk0Konstantin Denessiouk1Mark S. Johnson2Vladimir N. Uversky3Structural Bioinformatics Laboratory, Biochemistry, InFLAMES Research Flagship Center, Faculty of Science and Engineering, Åbo Akademi University, 20520 Turku, FinlandStructural Bioinformatics Laboratory, Biochemistry, InFLAMES Research Flagship Center, Faculty of Science and Engineering, Åbo Akademi University, 20520 Turku, FinlandStructural Bioinformatics Laboratory, Biochemistry, InFLAMES Research Flagship Center, Faculty of Science and Engineering, Åbo Akademi University, 20520 Turku, FinlandDepartment of Molecular Medicine and USF Health Byrd Alzheimer’s Research Institute, Morsani College of Medicine, University of South Florida, Tampa, FL 33612, USAβ-Lactamase/transpeptidase-like superfamily proteins are serine proteases that use the Ser–Lys catalytic dyad to carry out their biological functions. Here, we investigate the three known families of β-lactamase/transpeptidase-like superfamily proteins, β-lactamase/D-Ala carboxypeptidase, glutaminase, and Dac-like, and describe the structural catalytic cores that govern the catalytic residues in these proteins. We show that the structural catalytic core of these proteins is a combination of three zones, the mutual three-dimensional arrangement of which correspondingly determines their belonging to one of seven and twenty-four established groups and subgroups.https://www.mdpi.com/1420-3049/30/9/2019β-lactamaseDD-carboxypeptidaseglutaminase3D structurecatalytic coreclassification |
| spellingShingle | Alexander I. Denesyuk Konstantin Denessiouk Mark S. Johnson Vladimir N. Uversky Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores Molecules β-lactamase DD-carboxypeptidase glutaminase 3D structure catalytic core classification |
| title | Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores |
| title_full | Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores |
| title_fullStr | Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores |
| title_full_unstemmed | Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores |
| title_short | Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores |
| title_sort | alpha and omega classification of β lactamase transpeptidase like superfamily proteins based on the comparison of their structural catalytic cores |
| topic | β-lactamase DD-carboxypeptidase glutaminase 3D structure catalytic core classification |
| url | https://www.mdpi.com/1420-3049/30/9/2019 |
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