Artículo

Boubeta, F.M.; Boechi, L.; Estrin, D.; Patrizi, B.; Di Donato, M.; Iagatti, A.; Giordano, D.; Verde, C.; Bruno, S.; Abbruzzetti, S.; Viappiani, C. "Cold-Adaptation Signatures in the Ligand Rebinding Kinetics to the Truncated Hemoglobin of the Antarctic Bacterium Pseudoalteromonas haloplanktis TAC125" (2018) Journal of Physical Chemistry B. 122(49):11649-11661
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Abstract:

Cold-adapted organisms have evolved proteins endowed with higher flexibility and lower stability in comparison to their thermophilic homologues, resulting in enhanced reaction rates at low temperatures. In this context, protein-bound water molecules were suggested to play a major role, and their weaker interactions at protein active sites have been associated with cold adaptation. In this work, we tested this hypothesis on truncated hemoglobins (a family of microbial heme-proteins of yet-unclear function) applying molecular dynamics simulations and ligand-rebinding kinetics on a protein from the Antarctic bacterium Pseudoalteromonas haloplanktis TAC125 in comparison with its thermophilic Thermobifida fusca homologue. The CO rebinding kinetics of the former highlight several geminate phases, with an unusually long-lived geminate intermediate. An articulated tunnel with at least two distinct docking sites was identified by analysis of molecular dynamics simulations and was suggested to be at the origin of the unusual geminate rebinding phase. Water molecules are present in the distal pocket, but their stabilization by TrpG8, TyrB10, and HisCD1 is much weaker than in thermophilic Thermobifida fusca truncated hemoglobin, resulting in a faster geminate rebinding. Our results support the hypothesis that weaker water-molecule interactions at the reaction site are associated with cold adaptation. © 2018 American Chemical Society.

Registro:

Documento: Artículo
Título:Cold-Adaptation Signatures in the Ligand Rebinding Kinetics to the Truncated Hemoglobin of the Antarctic Bacterium Pseudoalteromonas haloplanktis TAC125
Autor:Boubeta, F.M.; Boechi, L.; Estrin, D.; Patrizi, B.; Di Donato, M.; Iagatti, A.; Giordano, D.; Verde, C.; Bruno, S.; Abbruzzetti, S.; Viappiani, C.
Filiación:Instituto de Quimica Fisica de Los Materiales, Medio Ambiente y Energia (INQUIMAE), CONICET, Universidad de Buenos Aires, Buenos Aires, C1428EHA, Argentina
Instituto de Calculo, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Buenos Aires, C1428EGA, Argentina
European Laboratory for Non Linear Spectroscopy (LENS), Università di Firenze, Via Nello Carrara 1, Sesto Fiorentino, Florence, 50019, Italy
INO-CNR, Istituto Nazionale di Ottica, Consiglio Nazionale Delle Ricerche, Largo Fermi 6, Florence, 50125, Italy
Institute of Biosciences and BioResources (IBBR), CNR, Via Pietro Castellino 111, Naples, I-80131, Italy
Stazione Zoologica Anton Dohrn, Villa Comunale, Naples, 80121, Italy
Dipartimento di Scienze Degli Alimenti e Del Farmaco, Università di Parma, Parco Area delle Scienze 23A, Parma, 43124, Italy
Dipartimento di Scienze Matematiche, Fisiche e Informatiche, Università di Parma, Parco Area delle Scienze 7A, Parma, 43124, Italy
Palabras clave:Bacteria; Hemoglobin; Kinetics; Ligands; Molecular dynamics; Molecules; Reaction rates; Antarctic bacteria; Bound water molecules; Geminate rebinding; Ligand rebinding; Molecular dynamics simulations; Pseudoalteromonas haloplanktis; Thermobifida fusca; Truncated hemoglobins; Proteins
Año:2018
Volumen:122
Número:49
Página de inicio:11649
Página de fin:11661
DOI: http://dx.doi.org/10.1021/acs.jpcb.8b07682
Título revista:Journal of Physical Chemistry B
Título revista abreviado:J Phys Chem B
ISSN:15206106
CODEN:JPCBF
Registro:https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_15206106_v122_n49_p11649_Boubeta

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Citas:

---------- APA ----------
Boubeta, F.M., Boechi, L., Estrin, D., Patrizi, B., Di Donato, M., Iagatti, A., Giordano, D.,..., Viappiani, C. (2018) . Cold-Adaptation Signatures in the Ligand Rebinding Kinetics to the Truncated Hemoglobin of the Antarctic Bacterium Pseudoalteromonas haloplanktis TAC125. Journal of Physical Chemistry B, 122(49), 11649-11661.
http://dx.doi.org/10.1021/acs.jpcb.8b07682
---------- CHICAGO ----------
Boubeta, F.M., Boechi, L., Estrin, D., Patrizi, B., Di Donato, M., Iagatti, A., et al. "Cold-Adaptation Signatures in the Ligand Rebinding Kinetics to the Truncated Hemoglobin of the Antarctic Bacterium Pseudoalteromonas haloplanktis TAC125" . Journal of Physical Chemistry B 122, no. 49 (2018) : 11649-11661.
http://dx.doi.org/10.1021/acs.jpcb.8b07682
---------- MLA ----------
Boubeta, F.M., Boechi, L., Estrin, D., Patrizi, B., Di Donato, M., Iagatti, A., et al. "Cold-Adaptation Signatures in the Ligand Rebinding Kinetics to the Truncated Hemoglobin of the Antarctic Bacterium Pseudoalteromonas haloplanktis TAC125" . Journal of Physical Chemistry B, vol. 122, no. 49, 2018, pp. 11649-11661.
http://dx.doi.org/10.1021/acs.jpcb.8b07682
---------- VANCOUVER ----------
Boubeta, F.M., Boechi, L., Estrin, D., Patrizi, B., Di Donato, M., Iagatti, A., et al. Cold-Adaptation Signatures in the Ligand Rebinding Kinetics to the Truncated Hemoglobin of the Antarctic Bacterium Pseudoalteromonas haloplanktis TAC125. J Phys Chem B. 2018;122(49):11649-11661.
http://dx.doi.org/10.1021/acs.jpcb.8b07682