Structural and functional characterization of a cold-adapted stand-alone TPM domain reveals a relationship between dynamics and phosphatase activity
The TPM domain constitutes a family of recently characterized protein domains that are present in most living organisms. Although some progress has been made in understanding the cellular role of TPM-containing proteins, the relationship between structure and function is not clear yet. We have recen...
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ftunibueairesbd:paper:paper_1742464X_v283_n23_p4370_Pellizza 2023-05-15T13:51:25+02:00 Structural and functional characterization of a cold-adapted stand-alone TPM domain reveals a relationship between dynamics and phosphatase activity Smal, Clara Ithuralde, Raul Esteban Turjanski, Adrián Gustavo Cicero, Daniel Oscar Arán, Martín 2016 https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_1742464X_v283_n23_p4370_Pellizza https://hdl.handle.net/20.500.12110/paper_1742464X_v283_n23_p4370_Pellizza unknown https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_1742464X_v283_n23_p4370_Pellizza http://hdl.handle.net/20.500.12110/paper_1742464X_v283_n23_p4370_Pellizza Antarctic bacteria Bizionia argentinensis nuclear magnetic resonance phosphatase activity structural genomics TPM domain calcium ion magnesium ion phosphatase bacterial protein calcium divalent cation magnesium metal protein binding Article carboxy terminal sequence conformational transition enzyme active site enzyme activity enzyme binding enzyme mechanism heteronuclear single quantum coherence limit of quantitation low temperature molecular dynamics nitrogen nuclear magnetic resonance nonhuman priority journal protein unfolding adaptation amino acid sequence Antarctica binding site chemistry cold enzyme stability enzymology Flavobacteriaceae genetics kinetics metabolism molecular model mutation nuclear magnetic resonance spectroscopy pH protein domain sequence homology structure activity relation 2016 ftunibueairesbd https://doi.org/20.500.12110/paper_1742464X_v283_n23_p4370_Pellizza 2023-02-16T02:15:15Z The TPM domain constitutes a family of recently characterized protein domains that are present in most living organisms. Although some progress has been made in understanding the cellular role of TPM-containing proteins, the relationship between structure and function is not clear yet. We have recently solved the solution and crystal structure of one TPM domain (BA42) from the Antarctic bacterium Bizionia argentinensis. In this work, we demonstrate that BA42 has phosphoric-monoester hydrolase activity. The activity of BA42 is strictly dependent on the binding of divalent metals and retains nearly 70% of the maximum at 4 °C, a typical characteristic of cold-adapted enzymes. From HSQC, 15N relaxation measurements, and molecular dynamics studies, we determine that the flexibility of the crossing loops was associated to the protein activity. Thermal unfolding experiments showed that the local increment in flexibility of Mg2+-bound BA42, when compared with Ca2+-bound BA42, is associated to a decrease in global protein stability. Finally, through mutagenesis experiments, we unambiguously demonstrate that the region comprising the metal-binding site participates in the catalytic mechanism. The results shown here contribute to the understanding of the relationship between structure and function of this new family of TPM domains providing important cues on the regulatory role of Mg2+ and Ca2+ and the molecular mechanism underlying enzyme activity at low temperatures. © 2016 Federation of European Biochemical Societies Fil:Smal, C. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Ithuralde, R.E. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Turjanski, A.G. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Cicero, D.O. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Arán, M. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Other/Unknown Material Antarc* Antarctic Antarctica Biblioteca Digital FCEN-UBA (Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires) Antarctic Argentina The Antarctic |
institution |
Open Polar |
collection |
Biblioteca Digital FCEN-UBA (Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires) |
op_collection_id |
ftunibueairesbd |
language |
unknown |
topic |
Antarctic bacteria Bizionia argentinensis nuclear magnetic resonance phosphatase activity structural genomics TPM domain calcium ion magnesium ion phosphatase bacterial protein calcium divalent cation magnesium metal protein binding Article carboxy terminal sequence conformational transition enzyme active site enzyme activity enzyme binding enzyme mechanism heteronuclear single quantum coherence limit of quantitation low temperature molecular dynamics nitrogen nuclear magnetic resonance nonhuman priority journal protein unfolding adaptation amino acid sequence Antarctica binding site chemistry cold enzyme stability enzymology Flavobacteriaceae genetics kinetics metabolism molecular model mutation nuclear magnetic resonance spectroscopy pH protein domain sequence homology structure activity relation |
spellingShingle |
Antarctic bacteria Bizionia argentinensis nuclear magnetic resonance phosphatase activity structural genomics TPM domain calcium ion magnesium ion phosphatase bacterial protein calcium divalent cation magnesium metal protein binding Article carboxy terminal sequence conformational transition enzyme active site enzyme activity enzyme binding enzyme mechanism heteronuclear single quantum coherence limit of quantitation low temperature molecular dynamics nitrogen nuclear magnetic resonance nonhuman priority journal protein unfolding adaptation amino acid sequence Antarctica binding site chemistry cold enzyme stability enzymology Flavobacteriaceae genetics kinetics metabolism molecular model mutation nuclear magnetic resonance spectroscopy pH protein domain sequence homology structure activity relation Smal, Clara Ithuralde, Raul Esteban Turjanski, Adrián Gustavo Cicero, Daniel Oscar Arán, Martín Structural and functional characterization of a cold-adapted stand-alone TPM domain reveals a relationship between dynamics and phosphatase activity |
topic_facet |
Antarctic bacteria Bizionia argentinensis nuclear magnetic resonance phosphatase activity structural genomics TPM domain calcium ion magnesium ion phosphatase bacterial protein calcium divalent cation magnesium metal protein binding Article carboxy terminal sequence conformational transition enzyme active site enzyme activity enzyme binding enzyme mechanism heteronuclear single quantum coherence limit of quantitation low temperature molecular dynamics nitrogen nuclear magnetic resonance nonhuman priority journal protein unfolding adaptation amino acid sequence Antarctica binding site chemistry cold enzyme stability enzymology Flavobacteriaceae genetics kinetics metabolism molecular model mutation nuclear magnetic resonance spectroscopy pH protein domain sequence homology structure activity relation |
description |
The TPM domain constitutes a family of recently characterized protein domains that are present in most living organisms. Although some progress has been made in understanding the cellular role of TPM-containing proteins, the relationship between structure and function is not clear yet. We have recently solved the solution and crystal structure of one TPM domain (BA42) from the Antarctic bacterium Bizionia argentinensis. In this work, we demonstrate that BA42 has phosphoric-monoester hydrolase activity. The activity of BA42 is strictly dependent on the binding of divalent metals and retains nearly 70% of the maximum at 4 °C, a typical characteristic of cold-adapted enzymes. From HSQC, 15N relaxation measurements, and molecular dynamics studies, we determine that the flexibility of the crossing loops was associated to the protein activity. Thermal unfolding experiments showed that the local increment in flexibility of Mg2+-bound BA42, when compared with Ca2+-bound BA42, is associated to a decrease in global protein stability. Finally, through mutagenesis experiments, we unambiguously demonstrate that the region comprising the metal-binding site participates in the catalytic mechanism. The results shown here contribute to the understanding of the relationship between structure and function of this new family of TPM domains providing important cues on the regulatory role of Mg2+ and Ca2+ and the molecular mechanism underlying enzyme activity at low temperatures. © 2016 Federation of European Biochemical Societies Fil:Smal, C. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Ithuralde, R.E. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Turjanski, A.G. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Cicero, D.O. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Arán, M. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. |
author |
Smal, Clara Ithuralde, Raul Esteban Turjanski, Adrián Gustavo Cicero, Daniel Oscar Arán, Martín |
author_facet |
Smal, Clara Ithuralde, Raul Esteban Turjanski, Adrián Gustavo Cicero, Daniel Oscar Arán, Martín |
author_sort |
Smal, Clara |
title |
Structural and functional characterization of a cold-adapted stand-alone TPM domain reveals a relationship between dynamics and phosphatase activity |
title_short |
Structural and functional characterization of a cold-adapted stand-alone TPM domain reveals a relationship between dynamics and phosphatase activity |
title_full |
Structural and functional characterization of a cold-adapted stand-alone TPM domain reveals a relationship between dynamics and phosphatase activity |
title_fullStr |
Structural and functional characterization of a cold-adapted stand-alone TPM domain reveals a relationship between dynamics and phosphatase activity |
title_full_unstemmed |
Structural and functional characterization of a cold-adapted stand-alone TPM domain reveals a relationship between dynamics and phosphatase activity |
title_sort |
structural and functional characterization of a cold-adapted stand-alone tpm domain reveals a relationship between dynamics and phosphatase activity |
publishDate |
2016 |
url |
https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_1742464X_v283_n23_p4370_Pellizza https://hdl.handle.net/20.500.12110/paper_1742464X_v283_n23_p4370_Pellizza |
geographic |
Antarctic Argentina The Antarctic |
geographic_facet |
Antarctic Argentina The Antarctic |
genre |
Antarc* Antarctic Antarctica |
genre_facet |
Antarc* Antarctic Antarctica |
op_relation |
https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_1742464X_v283_n23_p4370_Pellizza http://hdl.handle.net/20.500.12110/paper_1742464X_v283_n23_p4370_Pellizza |
op_doi |
https://doi.org/20.500.12110/paper_1742464X_v283_n23_p4370_Pellizza |
_version_ |
1766255270581764096 |