Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores

Alexandre Denesyuk; Konstantin Denessiouk; Mark Johnson; Vladimir Uversky

doi:10.3390/molecules30092019

Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores

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Abstrakti

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.

Alkuperäiskieli	Englanti
Artikkeli	2019
Sivumäärä	19
Julkaisu	Molecules
Vuosikerta	30
Numero	9
DOI - pysyväislinkit	https://doi.org/10.3390/molecules30092019
Tila	Julkaistu - 30 huhtik. 2025
OKM-julkaisutyyppi	A1 Julkaistu artikkeli, soviteltu

Rahoitus

We thank the Biocenter Finland Bioinformatics Network (Jukka Lehtonen) and the CSC IT Center for Science for computational support for the project. The Structural Bioinformatics Laboratory is part of the Solution for Health strategic area of Åbo Akademi University and within the InFLAMES Flagship program on inflammation and infection, Åbo Akademi University and the University of Turku, funded by the Academy of Finland.

Pääsy asiakirjaan

10.3390/molecules30092019

molecules-30-02019-v2Lopullinen julkaistu versio, 2,66 MBLisenssi: CC BY

https://urn.fi/URN:NBN:fi-fe20251031104377

Viittausmuodot

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abstract = "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. ",

keywords = "3D structure; DD-carboxypeptidase; catalytic core; classification; glutaminase; β-lactamase.",

author = "Alexandre Denesyuk and Konstantin Denessiouk and Mark Johnson and Vladimir Uversky",

year = "2025",

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day = "30",

doi = "10.3390/molecules30092019",

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T1 - Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores

AU - Denesyuk, Alexandre

AU - Denessiouk, Konstantin

AU - Johnson, Mark

AU - Uversky, Vladimir

PY - 2025/4/30

Y1 - 2025/4/30

N2 - 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.

AB - 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.

KW - 3D structure; DD-carboxypeptidase; catalytic core; classification; glutaminase; β-lactamase.

U2 - 10.3390/molecules30092019

DO - 10.3390/molecules30092019

M3 - Article

SN - 1420-3049

VL - 30

JO - Molecules

JF - Molecules

IS - 9

M1 - 2019

ER -

Alpha and Omega Classification of β-Lactamase/Transpeptidase-like Superfamily Proteins Based on the Comparison of Their Structural Catalytic Cores

Abstrakti

Rahoitus

Pääsy asiakirjaan

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