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Bonin M, Irion AL, Jürß A, Pascual S, Cord-Landwehr S, Planas A, Moerschbacher BM. Engineering of a chitin deacetylase to generate tailor-made chitosan polymers. PLoS Biol 2024; 22:e3002459. [PMID: 38236907 PMCID: PMC10796014 DOI: 10.1371/journal.pbio.3002459] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2023] [Accepted: 12/04/2023] [Indexed: 01/22/2024] Open
Abstract
Chitin deacetylases (CDAs) emerge as a valuable tool to produce chitosans with a nonrandom distribution of N-acetylglucosamine (GlcNAc) and glucosamine (GlcN) units. We hypothesized before that CDAs tend to bind certain sequences within the substrate matching their subsite preferences for either GlcNAc or GlcN units. Thus, they deacetylate or N-acetylate their substrates at nonrandom positions. To understand the molecular basis of these preferences, we analyzed the binding site of a CDA from Pestalotiopsis sp. (PesCDA) using a detailed activity screening of a site-saturation mutagenesis library. In addition, molecular dynamics simulations were conducted to get an in-depth view of crucial interactions along the binding site. Besides elucidating the function of several amino acids, we were able to show that only 3 residues are responsible for the highly specific binding of PesCDA to oligomeric substrates. The preference to bind a GlcNAc unit at subsite -2 and -1 can mainly be attributed to N75 and H199, respectively. Whereas an exchange of N75 at subsite -2 eliminates enzyme activity, H199 can be substituted with tyrosine to increase the GlcN acceptance at subsite -1. This change in substrate preference not only increases enzyme activity on certain substrates and changes composition of oligomeric products but also significantly changes the pattern of acetylation (PA) when N-acetylating polyglucosamine. Consequently, we could clearly show how subsite preferences influence the PA of chitosans produced with CDAs.
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Affiliation(s)
- Martin Bonin
- Institute for Biology and Biotechnology of Plants, University of Münster, Münster, Germany
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Barcelona, Spain
| | - Antonia L. Irion
- Institute for Biology and Biotechnology of Plants, University of Münster, Münster, Germany
| | - Anika Jürß
- Institute for Biology and Biotechnology of Plants, University of Münster, Münster, Germany
| | - Sergi Pascual
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Barcelona, Spain
| | - Stefan Cord-Landwehr
- Institute for Biology and Biotechnology of Plants, University of Münster, Münster, Germany
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Barcelona, Spain
| | - Bruno M. Moerschbacher
- Institute for Biology and Biotechnology of Plants, University of Münster, Münster, Germany
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Nin-Hill A, Ardevol A, Biarnés X, Planas A, Rovira C. Control of Substrate Conformation by Hydrogen Bonding in a Retaining β-Endoglycosidase. Chemistry 2023; 29:e202302555. [PMID: 37804517 DOI: 10.1002/chem.202302555] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2023] [Revised: 09/29/2023] [Accepted: 10/02/2023] [Indexed: 10/09/2023]
Abstract
Bacterial β-glycosidases are hydrolytic enzymes that depolymerize polysaccharides such as β-cellulose, β-glucans and β-xylans from different sources, offering diverse biomedical and industrial uses. It has been shown that a conformational change of the substrate, from a relaxed 4 C1 conformation to a distorted 1 S3 /1,4 B conformation of the reactive sugar, is necessary for catalysis. However, the molecular determinants that stabilize the substrate's distortion are poorly understood. Here we use quantum mechanics/molecular mechanics (QM/MM)-based molecular dynamics methods to assess the impact of the interaction between the reactive sugar, i. e. the one at subsite -1, and the catalytic nucleophile (a glutamate) on substrate conformation. We show that the hydrogen bond involving the C2 exocyclic group and the nucleophile controls substrate conformation: its presence preserves sugar distortion, whereas its absence (e.g. in an enzyme mutant) knocks it out. We also show that 2-deoxy-2-fluoro derivatives, widely used to trap the reaction intermediates by X-ray crystallography, reproduce the conformation of the hydrolysable substrate at the experimental conditions. These results highlight the importance of the 2-OH⋅⋅⋅nucleophile interaction in substrate recognition and catalysis in endo-glycosidases and can inform mutational campaigns aimed to search for more efficient enzymes.
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Affiliation(s)
- Alba Nin-Hill
- Departament de Química Inorgànica i Orgànica (Secció de Química Orgànica) &, Institut de Química Teòrica i Computacional (IQTCUB), Universitat de Barcelona, 08028, Barcelona, Spain
- present address: Toulouse Biotechnology Institute, TBI, Universite de Toulouse, CNRS, INRAE, INSA Toulouse, 135, avenue de Rangueil, 31077, Toulouse Cedex 04, France
| | - Albert Ardevol
- CSIRO Manufacturing, GPO Box 1700, Canberra, ACT 2601, Australia
| | - Xevi Biarnés
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017, Barcelona, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017, Barcelona, Spain
| | - Carme Rovira
- Departament de Química Inorgànica i Orgànica (Secció de Química Orgànica) &, Institut de Química Teòrica i Computacional (IQTCUB), Universitat de Barcelona, 08028, Barcelona, Spain
- Institució Catalana de Recerca i Estudis Avançats (ICREA), 08020, Barcelona, Spain
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González-Ríos N, Artigues M, Guerra-Rebollo M, Planas A, Borrós S, Faijes M, Fornaguera C. Novel α-mannose-functionalized poly(β-amino ester) nanoparticles as mRNA vaccines with increased antigen presenting cell selectivity in the spleen. J Mater Chem B 2023. [PMID: 37350113 DOI: 10.1039/d3tb00607g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/24/2023]
Abstract
mRNA vaccination has emerged as a prominent therapy for the future of medicine. Despite the colossal advance in this technology and worldwide efficacy proof (ca. COVID vaccines), mRNA carriers still lack cell/tissue specificity, leading to possible side effects, and reduced efficacy among others. Herein we make use of the ubiquitous affinity of antigen-presenting cells (APC)s for glycosides to achieve specific targeting. To achieve this goal, we designed a new generation of α-mannosyl functionalized oligopeptide-terminated poly(β-aminoester). Fine formulation of these polymers with mRNA resulted in nanoparticles decorated with surface-exposed α-mannoses with sizes around 180 nm and positive surface charge. Notably, these particles maintained their properties after freeze-drying and subsequent redispersion. Finally, our mRNA carriers preferentially targeted and transfected APCs in vitro and in vivo. In conclusion, we demonstrated, at a preclinical level, that the mannose functionalization enables more selective targeting of APCs and, thus, these polymer and nanoparticles are candidates for a new generation of mRNA immunotherapy vaccines.
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Affiliation(s)
- Nil González-Ríos
- Grup d'Enginyeria de Materials (Gemat), Institut Químic de Sarrià (IQS), Universitat Ramon Llull (URL), 08017 Barcelona, Spain.
- Laboratoy of Biochemistry, Institut Químic de Sarrià (IQS), Universitat Ramon Llull (URL), 08017 Barcelona, Spain.
| | - Margalida Artigues
- Analytical and Applied Chemistry Department, Institut Químic de Sarrià (IQS), Universitat Ramon Llull (URL), 08017 Barcelona, Spain
| | - Marta Guerra-Rebollo
- Grup d'Enginyeria de Materials (Gemat), Institut Químic de Sarrià (IQS), Universitat Ramon Llull (URL), 08017 Barcelona, Spain.
| | - Antoni Planas
- Laboratoy of Biochemistry, Institut Químic de Sarrià (IQS), Universitat Ramon Llull (URL), 08017 Barcelona, Spain.
| | - Salvador Borrós
- Grup d'Enginyeria de Materials (Gemat), Institut Químic de Sarrià (IQS), Universitat Ramon Llull (URL), 08017 Barcelona, Spain.
| | - Magda Faijes
- Laboratoy of Biochemistry, Institut Químic de Sarrià (IQS), Universitat Ramon Llull (URL), 08017 Barcelona, Spain.
| | - Cristina Fornaguera
- Grup d'Enginyeria de Materials (Gemat), Institut Químic de Sarrià (IQS), Universitat Ramon Llull (URL), 08017 Barcelona, Spain.
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Miró-Vinyals B, Artigues M, Wostrikoff K, Monte E, Broto-Puig F, Leivar P, Planas A. Chloroplast engineering of the green microalgae Chlamydomonas reinhardtii for the production of HAA, the lipid moiety of rhamnolipid biosurfactants. N Biotechnol 2023; 76:1-12. [PMID: 37004923 DOI: 10.1016/j.nbt.2023.03.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 02/25/2023] [Accepted: 03/30/2023] [Indexed: 04/03/2023]
Abstract
Hydroxyalkanoyloxyalkanoates (HAA) are lipidic surfactants with a number of potential applications, but more remarkably, they are the biosynthetic precursors of rhamnolipids (RL), which are preferred biosurfactants thanks to their excellent physicochemical properties, biological activities, and environmental biodegradability. Because the natural highest producer of RLs is the pathogenic bacterium Pseudomonas aeruginosa, important efforts have been dedicated to transfer production to heterologous non-pathogenic microorganisms. Unicellular photosynthetic microalgae are emerging as important hosts for sustainable industrial biotechnology due to their ability to transform CO2 efficiently into biomass and bioproducts of interest. Here, we have explored the potential of the eukaryotic green microalgae Chlamydomonas reinhardtii as a chassis to produce RLs. Chloroplast genome engineering allowed the stable functional expression of the gene encoding RhlA acyltransferase from P. aeruginosa, an enzyme catalyzing the condensation of two 3-hydroxyacyl acid intermediaries in the fatty acid synthase cycle, to produce HAA. Four congeners of varying chain lengths were identified and quantified by UHPLC-QTOF mass spectrometry and gas chromatography, including C10-C10 and C10-C8, and the less abundant C10-C12 and C10-C6 congeners. HAA was present in the intracellular fraction, but also showed increased accumulation in the extracellular medium. Moreover, HAA production was also observed under photoautotrophic conditions based on atmospheric CO2. These results establish that RhlA is active in the chloroplast and is able to produce a new pool of HAA in a eukaryotic host. Subsequent engineering of microalgal strains should contribute to the development of an alternative clean, safe and cost-effective platform for the sustainable production of RLs. DATA AVAILABILITY: The data that support the findings of this study are available from the corresponding authors upon reasonable request.
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Calvillo Á, Pellicer T, Carnicer M, Planas A. Developing a single-stage continuous process strategy for vitamin B 12 production with Propionibacterium freudenreichii. Microb Cell Fact 2023; 22:26. [PMID: 36759843 PMCID: PMC9912679 DOI: 10.1186/s12934-023-02029-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2022] [Accepted: 01/21/2023] [Indexed: 02/11/2023] Open
Abstract
BACKGROUND Vitamin B12 is a widely used compound in the feed and food, healthcare and medical industries that can only be produced by fermentation because of the complexity of its chemical synthesis. Besides, the use of Generally Recognized as Safe (GRAS) and Qualified Presumption of Safety (QPS) microorganisms, like Propionibacterium freudenreichii, especially non-GMO wild-type producers, are becoming an interesting alternative in markets where many final consumers have high health and ecological awareness. In this study, the production of vitamin B12 using the Propionibacterium freudenreichii NBRC 12391 wild-type strain was characterized and optimized in shake flasks before assessing several scale-up strategies. RESULTS Initial results established that: (i) agitation during the early stages of the culture had an inhibitory effect on the volumetric production, (ii) 5,6-dimethylbenzimidazole (DMBI) addition was necessary for vitamin B12 production, and (iii) kinetics of vitamin B12 accumulation were dependent on the induction time when DMBI was added. When scaling up in a bioreactor, both batch and fed-batch bioprocesses proved unsuitable for obtaining high volumetric productivities mainly due to carbon source limitation and propionic acid inhibition, respectively. To overcome these drawbacks, an anaerobic single-phase continuous bioprocess strategy was developed. This culture strategy was maintained stable during more than 5 residence times in two independent cultures, resulting in 5.7-fold increase in terms of volumetric productivity compared to other scale-up strategies. CONCLUSION Overall, compared to previously reported strategies aimed to reduce propionic acid inhibition, a less complex anaerobic single-phase continuous and more scalable bioprocess was achieved.
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Affiliation(s)
- Álvaro Calvillo
- grid.6162.30000 0001 2174 6723Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017 Barcelona, Spain
| | | | - Marc Carnicer
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017, Barcelona, Spain.
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017, Barcelona, Spain.
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Cuxart I, Coines J, Esquivias O, Faijes M, Planas A, Biarnés X, Rovira C. Enzymatic Hydrolysis of Human Milk Oligosaccharides. The Molecular Mechanism of Bifidobacterium Bifidum Lacto- N-biosidase. ACS Catal 2022; 12:4737-4743. [PMID: 35465242 PMCID: PMC9016705 DOI: 10.1021/acscatal.2c00309] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Revised: 03/26/2022] [Indexed: 12/22/2022]
Abstract
![]()
Bifidobacterium
bifidum lacto-N-biosidase (LnbB)
is a critical enzyme for the degradation
of human milk oligosaccharides in the gut microbiota of breast-fed
infants. Guided by recent crystal structures, we unveil its molecular
mechanism of catalysis using QM/MM metadynamics. We show that the
oligosaccharide substrate follows 1S3/1,4B → [4E]‡ → 4C1/4H5 and 4C1/4H5 → [4E/4H5]‡ → 1,4B conformational itineraries for the two
successive reaction steps, with reaction free energy barriers in agreement
with experiments. The simulations also identify a critical histidine
(His263) that switches between two orientations to modulate the pKa of the acid/base residue, facilitating catalysis.
The reaction intermediate of LnbB is best depicted as an oxazolinium
ion, with a minor population of neutral oxazoline. The present study
sheds light on the processing of oligosaccharides of the early life
microbiota and will be useful for the engineering of LnbB and similar
glycosidases for biocatalysis.
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Affiliation(s)
- Irene Cuxart
- Departament de Química Inorgànica i Orgànica & IQTCUB, Universitat de Barcelona, Martí i Franquès 1, 08028 Barcelona, Spain
| | - Joan Coines
- Departament de Química Inorgànica i Orgànica & IQTCUB, Universitat de Barcelona, Martí i Franquès 1, 08028 Barcelona, Spain
| | - Oriol Esquivias
- Departament de Química Inorgànica i Orgànica & IQTCUB, Universitat de Barcelona, Martí i Franquès 1, 08028 Barcelona, Spain
| | - Magda Faijes
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
| | - Xevi Biarnés
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
| | - Carme Rovira
- Departament de Química Inorgànica i Orgànica & IQTCUB, Universitat de Barcelona, Martí i Franquès 1, 08028 Barcelona, Spain
- Institució Catalana de Recerca i Estudis Avançats (ICREA), Passeig Lluís Companys, 23, 08020 Barcelona, Spain
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Pifarré F, Rosselló L, Hileno R, Palmi J, Bañeres L, Planas A, Prat JA. The use of oxygen as a possible screening biomarker for the diagnosis of chronic fatigue El aprovechamiento de oxígeno como posible biomarcador de cribaje para el diagnóstico de la fatiga crónica. Apunts Sports Medicine 2022. [DOI: 10.1016/j.apunsm.2022.100379] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Cotrina EY, Santos LM, Rivas J, Blasi D, Leite JP, Liz MA, Busquets MA, Planas A, Prohens R, Gimeno A, Jiménez-Barbero J, Gales L, Llop J, Quintana J, Cardoso I, Arsequell G. Targeting transthyretin in Alzheimer's disease: Drug discovery of small-molecule chaperones as disease-modifying drug candidates for Alzheimer's disease. Eur J Med Chem 2021; 226:113847. [PMID: 34555615 DOI: 10.1016/j.ejmech.2021.113847] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2021] [Revised: 09/08/2021] [Accepted: 09/09/2021] [Indexed: 12/15/2022]
Abstract
Transthyretin (TTR) has a well-established role in neuroprotection in Alzheimer's Disease (AD). We have setup a drug discovery program of small-molecule compounds that act as chaperones enhancing TTR/Amyloid-beta peptide (Aβ) interactions. A combination of computational drug repurposing approaches and in vitro biological assays have resulted in a set of molecules which were then screened with our in-house validated high-throughput screening ternary test. A prioritized list of chaperones was obtained and corroborated with ITC studies. Small-molecule chaperones have been discovered, among them our lead compound Iododiflunisal (IDIF), a molecule in the discovery phase; one investigational drug (luteolin); and 3 marketed drugs (sulindac, olsalazine and flufenamic), which could be directly repurposed or repositioned for clinical use. Not all TTR tetramer stabilizers behave as chaperones in vitro. These chemically diverse chaperones will be used for validating TTR as a target in vivo, and to select one repurposed drug as a candidate to enter clinical trials as AD disease-modifying drug.
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Affiliation(s)
- Ellen Y Cotrina
- Institut de Química Avançada de Catalunya (I.Q.A.C.-C.S.I.C.), E-08034, Barcelona, Spain
| | - Luis Miguel Santos
- IBMC - Instituto de Biologia Molecular e Celular, PT-4200-135, Porto, Portugal; i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto, PT-4200-135, Porto, Portugal
| | - Josep Rivas
- Plataforma Drug Discovery, Parc Científic de Barcelona (PCB), E-08028, Barcelona, Spain
| | - Daniel Blasi
- Plataforma Drug Discovery, Parc Científic de Barcelona (PCB), E-08028, Barcelona, Spain
| | - José Pedro Leite
- IBMC - Instituto de Biologia Molecular e Celular, PT-4200-135, Porto, Portugal; i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto, PT-4200-135, Porto, Portugal; Instituto de Ciências Biomédicas Abel Salazar (ICBAS), PT-4050-013, Porto, Portugal
| | - Márcia A Liz
- IBMC - Instituto de Biologia Molecular e Celular, PT-4200-135, Porto, Portugal; i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto, PT-4200-135, Porto, Portugal
| | - Maria Antònia Busquets
- Facultat de Farmàcia i Ciències de l'Alimentació, University of Barcelona, E-08028, Barcelona, Spain
| | - Antoni Planas
- Institut Químic de Sarrià, Universitat Ramon Llull, E-08017, Barcelona, Spain
| | - Rafel Prohens
- Centres Científics i Tecnologics, Universitat de Barcelona, E-08028, Barcelona, Spain
| | - Ana Gimeno
- CIC bioGUNE, Basque Research and Technology Alliance (BRTA), Bizkaia Technology Park, Building 800, E-48160, Derio, Spain
| | - Jesús Jiménez-Barbero
- CIC bioGUNE, Basque Research and Technology Alliance (BRTA), Bizkaia Technology Park, Building 800, E-48160, Derio, Spain; Ikerbasque, Basque Foundation for Science, E-48009, Bilbao, Spain
| | - Luis Gales
- IBMC - Instituto de Biologia Molecular e Celular, PT-4200-135, Porto, Portugal; i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto, PT-4200-135, Porto, Portugal; Instituto de Ciências Biomédicas Abel Salazar (ICBAS), PT-4050-013, Porto, Portugal
| | - Jordi Llop
- CIC biomaGUNE, Basque Research and Technology Alliance (BRTA), E-20014, San Sebastian, Spain
| | - Jordi Quintana
- Plataforma Drug Discovery, Parc Científic de Barcelona (PCB), E-08028, Barcelona, Spain.
| | - Isabel Cardoso
- IBMC - Instituto de Biologia Molecular e Celular, PT-4200-135, Porto, Portugal; i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto, PT-4200-135, Porto, Portugal; Instituto de Ciências Biomédicas Abel Salazar (ICBAS), PT-4050-013, Porto, Portugal.
| | - Gemma Arsequell
- Institut de Química Avançada de Catalunya (I.Q.A.C.-C.S.I.C.), E-08034, Barcelona, Spain.
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Grau-Guinea L, Pérez Enríquez C, García-Escobar G, Arrondo Elizarán C, Pereira Cutiño B, Florido Santiago M, Piqué Candini J, Planas A, Paez M, Peña Casanova J, Sánchez-Benavides G. Development, equivalence study, and normative data of version B of the Spanish-language Free and Cued Selective Reminding Test. Neurologia (Engl Ed) 2021; 36:353-360. [PMID: 34714233 DOI: 10.1016/j.nrleng.2018.02.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2017] [Accepted: 02/03/2018] [Indexed: 11/19/2022] Open
Abstract
INTRODUCTION The Free and Cued Selective Reminding Test (FCSRT) is widely used for the assessment of verbal episodic memory, mainly in patients with Alzheimer disease. A Spanish-language version of the FCSRT and normative data were developed within the NEURONORMA project. Availability of alternative, equivalent versions is useful for following patients up in clinical settings. This study aimed to develop an alternative version of the original FCSRT (version B) and to study its equivalence to the original Spanish-language test (version A), and its performance in a sample of healthy individuals, in order to develop reference data. METHODS We evaluated 232 healthy participants of the NEURONORMA-Plus project, aged between 18 and 90. Thirty-three participants were assessed with both test versions using a counterbalanced design. RESULTS High intra-class correlation coefficients (between 0.8 and 0.9) were observed in the equivalence study. While no significant differences in performance were observed in total recall scores, free recall scores were significantly lower for version B. CONCLUSIONS These preliminary results suggest that the newly developed FCSRT version B is equivalent to version A in the main variables tested. Further studies are necessary to ensure interchangeability between versions. We provide normative data for the new version.
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Affiliation(s)
- L Grau-Guinea
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain
| | - C Pérez Enríquez
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain
| | - G García-Escobar
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain
| | - C Arrondo Elizarán
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain
| | - B Pereira Cutiño
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain
| | - M Florido Santiago
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain
| | - J Piqué Candini
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain
| | - A Planas
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain
| | - M Paez
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain
| | - J Peña Casanova
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain.
| | - G Sánchez-Benavides
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, Spain; Barcelonaβeta Brain Research Center, Fundación Pasqual Maragall, Barcelona, Spain.
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Planas A. Peptidoglycan Deacetylases in Bacterial Cell Wall Remodeling and Pathogenesis. Curr Med Chem 2021; 29:1293-1312. [PMID: 34525907 DOI: 10.2174/0929867328666210915113723] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2021] [Revised: 07/24/2021] [Accepted: 07/26/2021] [Indexed: 11/22/2022]
Abstract
The bacterial cell wall peptidoglycan (PG) is a dynamic structure that is constantly synthesized, re-modeled and degraded during bacterial division and growth. Post-synthetic modifications modulate the action of endogenous autolysis during PG lysis and remodeling for growth and sporulation, but also they are a mechanism used by pathogenic bacteria to evade the host innate immune system. Modifica-tions of the glycan backbone are limited to the C-2 amine and the C-6 hydroxyl moieties of either Glc-NAc or MurNAc residues. This paper reviews the functional roles and properties of peptidoglycan de-N-acetylases (distinct PG GlcNAc and MurNAc deacetylases) and recent progress through genetic stud-ies and biochemical characterization to elucidate their mechanism of action, 3D structures, substrate specificities and biological functions. Since they are virulence factors in pathogenic bacteria, peptidogly-can deacetylases are potential targets for the design of novel antimicrobial agents.
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Affiliation(s)
- Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià. University Ramon Llull, 08017 Barcelona. Spain
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12
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Pote AR, Pascual S, Planas A, Peczuh MW. Indolyl Septanoside Synthesis for In Vivo Screening of Bacterial Septanoside Hydrolases. Int J Mol Sci 2021; 22:4497. [PMID: 33925857 PMCID: PMC8123396 DOI: 10.3390/ijms22094497] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2021] [Revised: 04/22/2021] [Accepted: 04/23/2021] [Indexed: 12/29/2022] Open
Abstract
Building-up and breaking-down of carbohydrates are processes common to all forms of life. Glycoside hydrolases are a broad class of enzymes that play a central role in the cleavage of glycosidic bonds, which is fundamental to carbohydrate degradation. The large majority of substrates are five- and six-membered ring glycosides. Our interest in seven-membered ring septanose sugars has inspired the development of a way to search for septanoside hydrolase activity. Described here is a strategy for the discovery of septanoside hydrolases that uses synthetic indolyl septanosides as chromogenic substrates. Access to these tool compounds was enabled by a route where septanosyl halides act as glycosyl donors for the synthesis of the indolyl septanosides. The screening strategy leverages the known dimerization of 3-hydroxy-indoles to make colored dyes, as occurs when the β-galactosidase substrate X-Gal is hydrolyzed. Because screens in bacterial cells would enable searches in organisms that utilize heptoses or from metagenomics libraries, we also demonstrate that septanosides are capable of entering E. coli cells through the use of a BODIPY-labeled septanoside. The modularity of the indolyl septanoside synthesis should allow the screening of a variety of substrates that mimic natural structures via this general approach.
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Affiliation(s)
- Aditya R. Pote
- Department of Chemistry, University of Connecticut, 55 N. Eagleville Road U3060, Storrs, CT 06269, USA;
| | - Sergi Pascual
- Laboratory of Biochemistry, Institute Químic de Sarrià, University Ramon Llull, 08017 Barcelona, Spain;
| | - Antoni Planas
- Laboratory of Biochemistry, Institute Químic de Sarrià, University Ramon Llull, 08017 Barcelona, Spain;
| | - Mark W. Peczuh
- Department of Chemistry, University of Connecticut, 55 N. Eagleville Road U3060, Storrs, CT 06269, USA;
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13
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Castejón-Vilatersana M, Faijes M, Planas A. Transglycosylation Activity of Engineered Bifidobacterium Lacto- N-Biosidase Mutants at Donor Subsites for Lacto- N-Tetraose Synthesis. Int J Mol Sci 2021; 22:3230. [PMID: 33810098 PMCID: PMC8004761 DOI: 10.3390/ijms22063230] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Revised: 03/14/2021] [Accepted: 03/19/2021] [Indexed: 01/11/2023] Open
Abstract
The health benefits of human milk oligosaccharides (HMOs) make them attractive targets as supplements for infant formula milks. However, HMO synthesis is still challenging and only two HMOs have been marketed. Engineering glycoside hydrolases into transglycosylases may provide biocatalytic routes to the synthesis of complex oligosaccharides. Lacto-N-biosidase from Bifidobacterium bifidum (LnbB) is a GH20 enzyme present in the gut microbiota of breast-fed infants that hydrolyzes lacto-N-tetraose (LNT), the core structure of the most abundant type I HMOs. Here we report a mutational study in the donor subsites of the substrate binding cleft with the aim of reducing hydrolytic activity and conferring transglycosylation activity for the synthesis of LNT from p-nitrophenyl β-lacto-N-bioside and lactose. As compared with the wt enzyme with negligible transglycosylation activity, mutants with residual hydrolase activity within 0.05% to 1.6% of the wild-type enzyme result in transglycosylating enzymes with LNT yields in the range of 10-30%. Mutations of Trp394, located in subsite -1 next to the catalytic residues, have a large impact on the transglycosylation/hydrolysis ratio, with W394F being the best mutant as a biocatalyst producing LNT at 32% yield. It is the first reported transglycosylating LnbB enzyme variant, amenable to further engineering for practical enzymatic synthesis of LNT.
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Affiliation(s)
| | - Magda Faijes
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017 Barcelona, Spain;
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017 Barcelona, Spain;
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14
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Cotrina EY, Vilà M, Nieto J, Arsequell G, Planas A. Preparative Scale Production of Recombinant Human Transthyretin for Biophysical Studies of Protein-Ligand and Protein-Protein Interactions. Int J Mol Sci 2020; 21:ijms21249640. [PMID: 33348885 PMCID: PMC7766448 DOI: 10.3390/ijms21249640] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2020] [Revised: 12/14/2020] [Accepted: 12/16/2020] [Indexed: 12/19/2022] Open
Abstract
Human transthyretin (hTTR), a serum protein with a main role in transporting thyroid hormones and retinol through binding to the retinol-binding protein, is an amyloidogenic protein involved in familial amyloidotic polyneuropathy (FAP), familial amyloidotic cardiomyopathy, and central nervous system selective amyloidosis. hTTR also has a neuroprotective role in Alzheimer disease, being the major Aβ binding protein in human cerebrospinal fluid (CSF) that prevents amyloid-β (Aβ) aggregation with consequent abrogation of toxicity. Here we report an optimized preparative expression and purification protocol of hTTR (wt and amyloidogenic mutants) for in vitro screening assays of TTR ligands acting as amyloidogenesis inhibitors or acting as molecular chaperones to enhance the TTR:Aβ interaction. Preparative yields were up to 660 mg of homogenous protein per L of culture in fed-batch bioreactor. The recombinant wt protein is mainly unmodified at Cys10, the single cysteine in the protein sequence, whereas the highly amyloidogenic Y78F variant renders mainly the S-glutathionated form, which has essentially the same amyloidogenic behavior than the reduced protein with free Cys10. The TTR production protocol has shown inter-batch reproducibility of expression and protein quality for in vitro screening assays.
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Affiliation(s)
- Ellen Y. Cotrina
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08017 Barcelona, Spain; (E.Y.C.); (M.V.); (J.N.)
- Institut de Química Avançada de Catalunya, Consejo Superior de Investigaciones Científicas (IQAC-CSIC), 08034 Barcelona, Spain;
| | - Marta Vilà
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08017 Barcelona, Spain; (E.Y.C.); (M.V.); (J.N.)
| | - Joan Nieto
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08017 Barcelona, Spain; (E.Y.C.); (M.V.); (J.N.)
| | - Gemma Arsequell
- Institut de Química Avançada de Catalunya, Consejo Superior de Investigaciones Científicas (IQAC-CSIC), 08034 Barcelona, Spain;
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08017 Barcelona, Spain; (E.Y.C.); (M.V.); (J.N.)
- Correspondence:
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15
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Cotrina EY, Blasi D, Vilà M, Planas A, Abad-Zapatero C, Centeno NB, Quintana J, Arsequell G. Optimization of kinetic stabilizers of tetrameric transthyretin: A prospective ligand efficiency-guided approach. Bioorg Med Chem 2020; 28:115794. [DOI: 10.1016/j.bmc.2020.115794] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2020] [Revised: 09/23/2020] [Accepted: 09/24/2020] [Indexed: 12/15/2022]
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Pascual S, Planas A. Carbohydrate de-N-acetylases acting on structural polysaccharides and glycoconjugates. Curr Opin Chem Biol 2020; 61:9-18. [PMID: 33075728 DOI: 10.1016/j.cbpa.2020.09.003] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2020] [Revised: 09/06/2020] [Accepted: 09/08/2020] [Indexed: 12/14/2022]
Abstract
Deacetylation of N-acetylhexosamine residues in structural polysaccharides and glycoconjugates is catalyzed by different families of carbohydrate esterases that, despite different structural folds, share a common metal-assisted acid/base mechanism with the metal cation coordinated with a conserved Asp-His-His triad. These enzymes serve diverse biological functions in the modification of cell-surface polysaccharides in bacteria and fungi as well as in the metabolism of hexosamines in the biosynthesis of cellular glycoconjugates. Focusing on carbohydrate de-N-acetylases, this article summarizes the background of the different families from a structural and functional viewpoint and covers advances in the characterization of novel enzymes over the last 2-3 years. Current research is addressed to the identification of new deacetylases and unravel their biological functions as they are candidate targets for the design of antimicrobials against pathogenic bacteria and fungi. Likewise, some families are also used as biocatalysts for the production of defined glycostructures with diverse applications.
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Affiliation(s)
- Sergi Pascual
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017, Barcelona, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017, Barcelona, Spain.
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17
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Alsina C, Sancho-Vaello E, Aranda-Martínez A, Faijes M, Planas A. Auxiliary active site mutations enhance the glycosynthase activity of a GH18 chitinase for polymerization of chitooligosaccharides. Carbohydr Polym 2020; 252:117121. [PMID: 33183587 DOI: 10.1016/j.carbpol.2020.117121] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2020] [Revised: 07/14/2020] [Accepted: 09/15/2020] [Indexed: 10/23/2022]
Abstract
Depolymerization of chitin results in chitooligosaccharides (COS) that induce immunostimulatory effects and disease protective responses and have many potential applications in agriculture and medicine. Isolation of bioactive COS with degree of polymerization (DP) larger than six from chitin hydrolyzates is hampered by their water insolubility. Enzymatic synthesis by exploiting the transglycosylation activity of GH18 chitinases offers a potential strategy to access oligomers in the range of bioactive DPs. We engineered SpChiD chitinase as a glycosynthase by mutation of the assisting residue of the catalytic triad in the substrate-assisted mechanism for polymerization of an oxazoline substrate (DP5ox). The insoluble polymer containing DP10 was partially hydrolyzed due to the significant residual hydrolase activity of the mutant enzyme. Combined mutations that strongly reduce the hydrolytic activity, in which the original catalytic triad only retains the essential acid/base residue, together with neighboring mutations in the -1/+1 subsites region, render glycosynthase-like chitinases able to produce chitin oligomers with DP10 as major product in good yields.
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Affiliation(s)
- Cristina Alsina
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Barcelona, Spain
| | - Enea Sancho-Vaello
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Barcelona, Spain
| | | | - Magda Faijes
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Barcelona, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Barcelona, Spain.
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18
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Orive-Milla N, Delmulle T, de Mey M, Faijes M, Planas A. Metabolic engineering for glycoglycerolipids production in E. coli: Tuning phosphatidic acid and UDP-glucose pathways. Metab Eng 2020; 61:106-119. [PMID: 32492511 DOI: 10.1016/j.ymben.2020.05.010] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2019] [Revised: 05/04/2020] [Accepted: 05/25/2020] [Indexed: 12/12/2022]
Abstract
Glycolipids are target molecules in biotechnology and biomedicine as biosurfactants, biomaterials and bioactive molecules. An engineered E. coli strain for the production of glycoglycerolipids (GGL) used the MG517 glycolipid synthase from M. genitalium for glucosyl transfer from UDPGlc to diacylglycerol acceptor (Mora-Buyé et al., 2012). The intracellular diacylglycerol pool proved to be the limiting factor for GGL production. Here we designed different metabolic engineering strategies to enhance the availability of precursor substrates for the glycolipid synthase by modulating fatty acids, acyl donor and phosphatidic acid biosynthesis. Knockouts of tesA, fadE and fabR genes involved in fatty acids degradation, overexpression of the transcriptional regulator FadR, the acyltransferases PlsB and C, and the pyrophosphatase Cdh for phosphatidic acid biosynthesis, as well as the phosphatase PgpB for conversion to diacylglycerol were explored with the aim of improving GGL titers. Among the different engineered strains, the ΔtesA strain co-expressing MG517 and a fusion PlsCxPgpB protein was the best producer, with a 350% increase of GGL titer compared to the parental strain expressing MG517 alone. Attempts to boost UDPGlc availability by overexpressing the uridyltransferase GalU or knocking out the UDP-sugar diphosphatase encoding gene ushA did not further improve GGL titers. Most of the strains produced GGL containing a variable number of glucosyl units from mono-to tetra-saccharides. Interestingly, the strains co-expressing Cdh showed a shift in the GGL profile towards the diglucosylated lipid (up to 80% of total GGLs) whereas the strains with a fadR knockout presented a higher amount of unsaturated acyl chains. In all cases, GGL production altered the lipidic composition of the E. coli membrane, observing that GGL replace phosphatidylethanolamine to maintain the overall membrane charge balance.
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Affiliation(s)
- Nuria Orive-Milla
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Via Augusta 350, E-08017, Barcelona, Spain
| | - Tom Delmulle
- Centre for Synthetic Biology (CSB), Ghent University, Coupure Links 653, B-9000, Ghent, Belgium
| | - Marjan de Mey
- Centre for Synthetic Biology (CSB), Ghent University, Coupure Links 653, B-9000, Ghent, Belgium
| | - Magda Faijes
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Via Augusta 350, E-08017, Barcelona, Spain.
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, Via Augusta 350, E-08017, Barcelona, Spain.
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19
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Grifoll-Romero L, Sainz-Polo MA, Albesa-Jové D, Guerin ME, Biarnés X, Planas A. Structure-function relationships underlying the dual N-acetylmuramic and N-acetylglucosamine specificities of the bacterial peptidoglycan deacetylase PdaC. J Biol Chem 2019; 294:19066-19080. [PMID: 31690626 DOI: 10.1074/jbc.ra119.009510] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2019] [Revised: 11/01/2019] [Indexed: 01/30/2023] Open
Abstract
Bacillus subtilis PdaC (BsPdaC) is a membrane-bound, multidomain peptidoglycan N-deacetylase acting on N-acetylmuramic acid (MurNAc) residues and conferring lysozyme resistance to modified cell wall peptidoglycans. BsPdaC contains a C-terminal family 4 carbohydrate esterase (CE4) catalytic domain, but unlike other MurNAc deacetylases, BsPdaC also has GlcNAc deacetylase activity on chitooligosaccharides (COSs), characteristic of chitin deacetylases. To uncover the molecular basis of this dual activity, here we determined the X-ray structure of the BsPdaC CE4 domain at 1.54 Å resolution and analyzed its mode of action on COS substrates. We found that the minimal substrate is GlcNAc3 and that activity increases with the degree of glycan polymerization. COS deacetylation kinetics revealed that BsPdaC operates by a multiple-chain mechanism starting at the internal GlcNAc units and leading to deacetylation of all but the reducing-end GlcNAc residues. Interestingly, BsPdaC shares higher sequence similarity with the peptidoglycan GlcNAc deacetylase SpPgdaA than with other MurNAc deacetylases. Therefore, we used ligand-docking simulations to analyze the dual GlcNAc- and MurNAc-binding specificities of BsPdaC and compared them with those of SpPgdA and BsPdaA, representing peptidoglycan deacetylases highly specific for GlcNAc or MurNAc residues, respectively. BsPdaC retains the conserved Asp-His-His metal-binding triad characteristic of CE4 enzymes acting on GlcNAc residues, differing from MurNAc deacetylases that lack the metal-coordinating Asp residue. BsPdaC contains short loops similar to those in SpPgdA, resulting in an open binding cleft that can accommodate polymeric substrates. We propose that PdaC is the first member of a new subclass of peptidoglycan MurNAc deacetylases.
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Affiliation(s)
- Laia Grifoll-Romero
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017 Barcelona, Spain
| | - María Angela Sainz-Polo
- Structural Biology Unit, Center for Cooperative Research in Biosciences (CIC bioGUNE), Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain
| | - David Albesa-Jové
- Structural Biology Unit, Center for Cooperative Research in Biosciences (CIC bioGUNE), Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain.,Basque Foundation for Science (IKERBASQUE), 48011 Bilbao, Spain
| | - Marcelo E Guerin
- Structural Biology Unit, Center for Cooperative Research in Biosciences (CIC bioGUNE), Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain.,Basque Foundation for Science (IKERBASQUE), 48011 Bilbao, Spain
| | - Xevi Biarnés
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017 Barcelona, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, University Ramon Llull, 08017 Barcelona, Spain
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Faijes M, Castejón-Vilatersana M, Val-Cid C, Planas A. Enzymatic and cell factory approaches to the production of human milk oligosaccharides. Biotechnol Adv 2019; 37:667-697. [DOI: 10.1016/j.biotechadv.2019.03.014] [Citation(s) in RCA: 59] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2018] [Revised: 02/22/2019] [Accepted: 03/23/2019] [Indexed: 12/15/2022]
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21
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Alsina C, Faijes M, Planas A. Glycosynthase-type GH18 mutant chitinases at the assisting catalytic residue for polymerization of chitooligosaccharides. Carbohydr Res 2019; 478:1-9. [PMID: 31005672 DOI: 10.1016/j.carres.2019.04.001] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2019] [Revised: 03/15/2019] [Accepted: 04/10/2019] [Indexed: 11/16/2022]
Abstract
Chitooligosaccharides (COS), the depolymerization products of chitin, have many potential applications in agriculture and medicine since they induce immunostimulating effects and disease protective responses. Most of their biological activities require degrees of polymerization (DP) larger than the tetrasaccharide, but structurally well-defined COS with DP larger than six are difficult to produce due to their high insolubility and complex isolation from chitin hydrolysates. Enzymatic synthesis by exploiting the transglycosylation activity of chitinases offers a potential strategy for the assembly of oligomers in the range of bioactive DPs. We here explore the glycosynthase-like activity of six GH18 chitinases from bacterial and archaeal origin by mutating the catalytic assisting residue in the substrate-assisted mechanism of this enzyme family. The alanine mutants at the assisting residue have a significant, but not essential, effect on the hydrolase activity. We studied the ability of the alanine mutants at the assisting residue to catalyze the polymerization of an oxazoline derivative as donor substrate, selecting the oxazoline of pentaacetylchitopentaose (DP5ox) with the aim of obtaining larger oligomers/polymers that, being insoluble, might be resistant to further reactions by the hydrolytically compromised mutant enzymes. For all the enzymes, insoluble polymeric material was obtained, with DP10 as major component, but other COS with different DPs were also obtained, limiting the practical application to produce oligomers/polymers with a defined DP. The balance between the residual hydrolase activity of the mutant enzymes and the solubility/precipitation kinetics still lead to hydrolysis and/or transglycosylation reactions on the newly formed products. From the selected enzymes, the Thermococcus kodakaraensis ChiA D1022A mutant gave the best results, with the formation of insoluble polymers in 45% yield (w/w) and containing about 55% of the target DP10 product.
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Affiliation(s)
- Cristina Alsina
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull Via Augusta 390, 08017, Barcelona, Spain
| | - Magda Faijes
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull Via Augusta 390, 08017, Barcelona, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull Via Augusta 390, 08017, Barcelona, Spain.
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Coines J, Alfonso‐Prieto M, Biarnés X, Planas A, Rovira C. Oxazoline or Oxazolinium Ion? The Protonation State and Conformation of the Reaction Intermediate of Chitinase Enzymes Revisited. Chemistry 2018; 24:19258-19265. [DOI: 10.1002/chem.201803905] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2018] [Revised: 09/29/2018] [Indexed: 11/07/2022]
Affiliation(s)
- Joan Coines
- Departament de Química Inorgànica i Orgànica, (secció de Química Orgànica) and Institut de Química Teòrica i, Computacional (IQTCUB)Universitat de Barcelona, Martí i Franquès 1 08028 Barcelona Spain
| | - Mercedes Alfonso‐Prieto
- Departament de Química Inorgànica i Orgànica, (secció de Química Orgànica) and Institut de Química Teòrica i, Computacional (IQTCUB)Universitat de Barcelona, Martí i Franquès 1 08028 Barcelona Spain
- Current address: INM-9/IAS-5Forschungszentrum Jülich, 52425 Jülich (Germany) and C. and O. Vogt Institute for Brain Research, Heinrich Heine University Düsseldorf 40225 Düsseldorf Germany
| | - Xevi Biarnés
- Laboratory of BiochemistryInstitut Químic de SarriàUniversitat Ramon Llull Via Augusta, 390 08017 Barcelona Spain
| | - Antoni Planas
- Laboratory of BiochemistryInstitut Químic de SarriàUniversitat Ramon Llull Via Augusta, 390 08017 Barcelona Spain
| | - Carme Rovira
- Departament de Química Inorgànica i Orgànica, (secció de Química Orgànica) and Institut de Química Teòrica i, Computacional (IQTCUB)Universitat de Barcelona, Martí i Franquès 1 08028 Barcelona Spain
- Institució Catalana de Recerca i Estudis Avançats (ICREA) Passeig Lluís Companys 23 08010 Barcelona Spain
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Pascual S, Planas A. Screening Assay for Directed Evolution of Chitin Deacetylases: Application to Vibrio cholerae Deacetylase Mutant Libraries for Engineered Specificity. Anal Chem 2018; 90:10654-10658. [PMID: 30134658 DOI: 10.1021/acs.analchem.8b02729] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
Not only the degree of acetylation but also the pattern of acetylation of chitosans and chitooligosaccharides (COS) appear to be critical for their biological activities. Protein engineering may expand the toolbox of chitin deacetylases (CDAs) with defined specificities for the enzymatic production of partially deacetylated COS for biotech and biomedical applications. A high-throughput screening (HTS) assay for screening directed evolution libraries is reported. It is based on a fluorescence monitoring assay of the deacetylase activity on COS substrates after capturing the expressed enzyme variants fused to a chitin binding module with chitin-coated magnetic beads. The assay is applied to the screening of random libraries of a Vibrio cholera CDA for increased activity on longer COS substrates.
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Affiliation(s)
- Sergi Pascual
- Laboratory of Biochemistry , Institut Químic de Sarrià, University Ramon Llull , 08017 Barcelona , Spain
| | - Antoni Planas
- Laboratory of Biochemistry , Institut Químic de Sarrià, University Ramon Llull , 08017 Barcelona , Spain
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24
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Laguna JJ, Archilla J, Doña I, Corominas M, Gastaminza G, Mayorga C, Berjes-Gimeno P, Tornero P, Martin S, Planas A, Moreno E, Torres MJ. Practical Guidelines for Perioperative Hypersensitivity Reactions. J Investig Allergol Clin Immunol 2018; 28:216-232. [DOI: 10.18176/jiaci.0236] [Citation(s) in RCA: 51] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
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25
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Grau-Guinea L, Pérez-Enríquez C, García-Escobar G, Arrondo-Elizarán C, Pereira-Cutiño B, Florido-Santiago M, Piqué-Candini J, Planas A, Paez M, Peña-Casanova J, Sánchez-Benavides G. Development, equivalence study, and normative data of version B of the Spanish-language Free and Cued Selective Reminding Test. Neurologia 2018. [PMID: 29752037 DOI: 10.1016/j.nrl.2018.02.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022] Open
Abstract
INTRODUCTION The Free and Cued Selective Reminding Test (FCSRT) is widely used for the assessment of verbal episodic memory, mainly in patients with Alzheimer disease. A Spanish version of the FCSRT and normative data were developed within the NEURONORMA project. Availability of alternative, equivalent versions is useful for following patients up in clinical settings. This study aimed to develop an alternative version of the original FCSRT (version B) and to study its equivalence to the original Spanish test (version A), and its performance in a sample of healthy individuals, in order to develop reference data. METHODS We evaluated 232 healthy participants of the NEURONORMA-Plus project, aged between 18 and 90. Thirty-three participants were assessed with both versions using a counterbalanced design. RESULTS High intra-class correlation coefficients (between 0.8 and 0.9) were observed in the equivalence study. While no significant differences in performance were observed in total recall scores, free recall scores were significantly lower for version B. CONCLUSIONS These preliminary results suggest that the newly developed FCSRT version B is equivalent to version A in the main variables tested. Further studies are necessary to ensure interchangeability between versions. We provide normative data for the new version.
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Affiliation(s)
- L Grau-Guinea
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España
| | - C Pérez-Enríquez
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España
| | - G García-Escobar
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España
| | - C Arrondo-Elizarán
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España
| | - B Pereira-Cutiño
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España
| | - M Florido-Santiago
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España
| | - J Piqué-Candini
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España
| | - A Planas
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España
| | - M Paez
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España
| | - J Peña-Casanova
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España.
| | - G Sánchez-Benavides
- Grupo de Neurofuncionalidad y Lenguaje, Programa de Neurociencias, IMIM-Hospital del Mar, Parc de Recerca Biomèdica de Barcelona, Barcelona, España; Barcelonaβeta Brain Research Center, Fundació Pasqual Maragall, Barcelona, España.
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Aranda-Martinez A, Grifoll-Romero L, Aragunde H, Sancho-Vaello E, Biarnés X, Lopez-Llorca LV, Planas A. Expression and specificity of a chitin deacetylase from the nematophagous fungus Pochonia chlamydosporia potentially involved in pathogenicity. Sci Rep 2018; 8:2170. [PMID: 29391415 PMCID: PMC5794925 DOI: 10.1038/s41598-018-19902-0] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2017] [Accepted: 01/10/2018] [Indexed: 11/21/2022] Open
Abstract
Chitin deacetylases (CDAs) act on chitin polymers and low molecular weight oligomers producing chitosans and chitosan oligosaccharides. Structurally-defined, partially deacetylated chitooligosaccharides produced by enzymatic methods are of current interest as bioactive molecules for a variety of applications. Among Pochonia chlamydosporia (Pc) annotated CDAs, gene pc_2566 was predicted to encode for an extracellular CE4 deacetylase with two CBM18 chitin binding modules. Chitosan formation during nematode egg infection by this nematophagous fungus suggests a role for their CDAs in pathogenicity. The P. chlamydosporia CDA catalytic domain (PcCDA) was expressed in E. coli BL21, recovered from inclusion bodies, and purified by affinity chromatography. It displays deacetylase activity on chitooligosaccharides with a degree of polymerization (DP) larger than 3, generating mono- and di-deacetylated products with a pattern different from those of closely related fungal CDAs. This is the first report of a CDA from a nematophagous fungus. On a DP5 substrate, PcCDA gave a single mono-deacetylated product in the penultimate position from the non-reducing end (ADAAA) which was then transformed into a di-deacetylated product (ADDAA). This novel deacetylation pattern expands our toolbox of specific CDAs for biotechnological applications, and will provide further insights into the determinants of substrate specificity in this family of enzymes.
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Affiliation(s)
- Almudena Aranda-Martinez
- Laboratory of Plant Pathology, Department of Marine Sciences and Applied Biology, Multidisciplinary Institute for Environmental Studies Ramón Margalef, University of Alicante, PO box 99, 03080, Alicante, Spain
| | - Laia Grifoll-Romero
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017, Barcelona, Spain
| | - Hugo Aragunde
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017, Barcelona, Spain
| | - Enea Sancho-Vaello
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017, Barcelona, Spain
| | - Xevi Biarnés
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017, Barcelona, Spain
| | - Luis Vicente Lopez-Llorca
- Laboratory of Plant Pathology, Department of Marine Sciences and Applied Biology, Multidisciplinary Institute for Environmental Studies Ramón Margalef, University of Alicante, PO box 99, 03080, Alicante, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017, Barcelona, Spain.
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Planas A, Ramasco F. Search for biomarkers to identify surgical patients at high cardiovascular and perioperative mortality risk. Rev Esp Anestesiol Reanim 2017; 64:547-549. [PMID: 29102403 DOI: 10.1016/j.redar.2017.09.002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2017] [Accepted: 09/12/2017] [Indexed: 11/26/2022]
Affiliation(s)
- A Planas
- Servicio de Anestesia y Reanimación, Hospital Universitario de la Princesa, Madrid, España.
| | - F Ramasco
- Servicio de Anestesia y Reanimación, Hospital Universitario de la Princesa, Madrid, España
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Granell M, Parra MJ, Jiménez MJ, Gallart L, Villalonga A, Valencia O, Unzueta MC, Planas A, Calvo JM. Review of difficult airway management in thoracic surgery. ACTA ACUST UNITED AC 2017; 65:31-40. [PMID: 28987399 DOI: 10.1016/j.redar.2017.08.001] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2017] [Accepted: 08/30/2017] [Indexed: 12/21/2022]
Abstract
The management of difficult airway (DA) in thoracic surgery is more difficult due to the need for lung separation or isolation and frequent presence of associated upper and lower airway problems. We performed an article review analysing 818 papers published with clinical evidence indexed in Pubmed that allowed us to develop an algorithm. The best airway management in predicted DA is tracheal intubation and independent bronchial blockers guided by fibroscopy maintaining spontaneous ventilation. For unpredicted DA, the use of videolaryngoscopes is recommended initially, and adequate neuromuscular relaxation (rocuronium/sugammadex), among other maneuvers. In both cases, double lumen tubes should be reserved for when lung separation is absolutely indicated. Finally, extubation should be a time of maximum care and be performed according to the safety measures of the Difficult Arway Society.
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Affiliation(s)
- M Granell
- Servicio de Anestesiología, Reanimación y Terapéutica del Dolor, Consorcio Hospital General Universitario de Valencia, Valencia, España.
| | - M J Parra
- Servicio de Anestesiología, Reanimación y Terapéutica del Dolor, Hospital Clínico Universitario de Valencia, Valencia, España
| | - M J Jiménez
- Servicio de Anestesiología, Reanimación y Terapéutica del Dolor, Hospital Clínic Universitari, Barcelona, España
| | - L Gallart
- Servicio de Anestesiología, Reanimación y Terapéutica del Dolor, Hospital del Mar, Barcelona, España
| | - A Villalonga
- Servicio de Anestesiología, Reanimación y Terapéutica del Dolor, Hospital Universitari Dr. Josep Trueta, Gerona, España
| | - O Valencia
- Hospital Universitario 12 de Octubre, Madrid, España
| | - M C Unzueta
- Servicio de Anestesiología, Reanimación y Terapéutica del Dolor, Hospital de la Santa Creu i Sant Pau, Barcelona, España
| | - A Planas
- Servicio de Anestesiología, Reanimación y Terapéutica del Dolor, Hospital Universitario de La Princesa, Madrid, España
| | - J M Calvo
- Servicio de Anestesiología, Reanimación y Terapéutica del Dolor, Hospital Clínico Universitario de Salamanca, Salamanca, España
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29
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Albesa-Jové D, Romero-García J, Sancho-Vaello E, Contreras FX, Rodrigo-Unzueta A, Comino N, Carreras-González A, Arrasate P, Urresti S, Biarnés X, Planas A, Guerin ME. Structural Snapshots and Loop Dynamics along the Catalytic Cycle of Glycosyltransferase GpgS. Structure 2017. [PMID: 28625787 DOI: 10.1016/j.str.2017.05.009] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
Glycosyltransferases (GTs) play a central role in nature. They catalyze the transfer of a sugar moiety to a broad range of acceptor substrates. GTs are highly selective enzymes, allowing the recognition of subtle structural differences in the sequences and stereochemistry of their sugar and acceptor substrates. We report here a series of structural snapshots of the reaction center of the retaining glucosyl-3-phosphoglycerate synthase (GpgS). During this sequence of events, we visualize how the enzyme guides the substrates into the reaction center where the glycosyl transfer reaction takes place, and unveil the mechanism of product release, involving multiple conformational changes not only in the substrates/products but also in the enzyme. The structural data are further complemented by metadynamics free-energy calculations, revealing how the equilibrium of loop conformations is modulated along these itineraries. The information reported here represent an important contribution for the understanding of GT enzymes at the molecular level.
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Affiliation(s)
- David Albesa-Jové
- Structural Biology Unit, CIC bioGUNE, Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain; Unidad de Biofísica, Centro Mixto Consejo Superior de Investigaciones Científicas - Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC-UPV/EHU), Barrio Sarriena s/n, Leioa, Bizkaia 48940, Spain; Departamento de Bioquímica, Universidad del País Vasco, 48080 Bilbao, Spain; IKERBASQUE, Basque Foundation for Science, 48011 Bilbao, Spain
| | - Javier Romero-García
- Laboratory of Biochemistry, Bioengineering Department, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona 08017, Spain
| | - Enea Sancho-Vaello
- Structural Biology Unit, CIC bioGUNE, Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain; Unidad de Biofísica, Centro Mixto Consejo Superior de Investigaciones Científicas - Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC-UPV/EHU), Barrio Sarriena s/n, Leioa, Bizkaia 48940, Spain
| | - F-Xabier Contreras
- Unidad de Biofísica, Centro Mixto Consejo Superior de Investigaciones Científicas - Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC-UPV/EHU), Barrio Sarriena s/n, Leioa, Bizkaia 48940, Spain; Departamento de Bioquímica, Universidad del País Vasco, 48080 Bilbao, Spain; IKERBASQUE, Basque Foundation for Science, 48011 Bilbao, Spain
| | - Ane Rodrigo-Unzueta
- Structural Biology Unit, CIC bioGUNE, Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain; Unidad de Biofísica, Centro Mixto Consejo Superior de Investigaciones Científicas - Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC-UPV/EHU), Barrio Sarriena s/n, Leioa, Bizkaia 48940, Spain
| | - Natalia Comino
- Structural Biology Unit, CIC bioGUNE, Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain; Unidad de Biofísica, Centro Mixto Consejo Superior de Investigaciones Científicas - Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC-UPV/EHU), Barrio Sarriena s/n, Leioa, Bizkaia 48940, Spain; Departamento de Bioquímica, Universidad del País Vasco, 48080 Bilbao, Spain
| | - Ana Carreras-González
- Structural Biology Unit, CIC bioGUNE, Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain
| | - Pedro Arrasate
- Structural Biology Unit, CIC bioGUNE, Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain; Unidad de Biofísica, Centro Mixto Consejo Superior de Investigaciones Científicas - Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC-UPV/EHU), Barrio Sarriena s/n, Leioa, Bizkaia 48940, Spain
| | - Saioa Urresti
- Structural Biology Unit, CIC bioGUNE, Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain; Unidad de Biofísica, Centro Mixto Consejo Superior de Investigaciones Científicas - Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC-UPV/EHU), Barrio Sarriena s/n, Leioa, Bizkaia 48940, Spain
| | - Xevi Biarnés
- Laboratory of Biochemistry, Bioengineering Department, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona 08017, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Bioengineering Department, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona 08017, Spain
| | - Marcelo E Guerin
- Structural Biology Unit, CIC bioGUNE, Bizkaia Technology Park, Ed. 801A, 48160 Derio, Spain; Unidad de Biofísica, Centro Mixto Consejo Superior de Investigaciones Científicas - Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC-UPV/EHU), Barrio Sarriena s/n, Leioa, Bizkaia 48940, Spain; Departamento de Bioquímica, Universidad del País Vasco, 48080 Bilbao, Spain; IKERBASQUE, Basque Foundation for Science, 48011 Bilbao, Spain.
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30
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Affiliation(s)
- David Carreras
- National Institute of Physical Education of Catalonia, Lleida University, Pda. La Caparrella s/n, 25192 Lleida, Spain
| | - Wilbur Kraak
- Department of Sport Science, Stellenbosch University, Republic of South Africa
| | - Antoni Planas
- National Institute of Physical Education of Catalonia, Lleida University, Pda. La Caparrella s/n, 25192 Lleida, Spain
| | | | - Luis Vaz
- Research Centre of Sport Science, Health and Human Development (CIDESD), Portugal
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31
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Durand J, Biarnés X, Watterlot L, Bonzom C, Borsenberger V, Planas A, Bozonnet S, O’Donohue MJ, Fauré R. A Single Point Mutation Alters the Transglycosylation/Hydrolysis Partition, Significantly Enhancing the Synthetic Capability of an endo-Glycoceramidase. ACS Catal 2016. [DOI: 10.1021/acscatal.6b02159] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Julien Durand
- LISBP, Université de Toulouse, CNRS, INRA, INSA, Toulouse, France
| | - Xevi Biarnés
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona, Spain
| | - Laurie Watterlot
- LISBP, Université de Toulouse, CNRS, INRA, INSA, Toulouse, France
| | - Cyrielle Bonzom
- LISBP, Université de Toulouse, CNRS, INRA, INSA, Toulouse, France
| | | | - Antoni Planas
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona, Spain
| | - Sophie Bozonnet
- LISBP, Université de Toulouse, CNRS, INRA, INSA, Toulouse, France
| | | | - Régis Fauré
- LISBP, Université de Toulouse, CNRS, INRA, INSA, Toulouse, France
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32
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Ramasco F, Méndez R, Planas A, Vega L, Gómez A, Santidrián S. Evolution of regional oxygen saturation in the peri-operative of thoracic surgery and its relationship with central venous saturation. Rev Esp Anestesiol Reanim 2016; 63:438-443. [PMID: 26633604 DOI: 10.1016/j.redar.2015.07.007] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2015] [Revised: 07/25/2015] [Accepted: 07/30/2015] [Indexed: 06/05/2023]
Abstract
OBJECTIVE To study the relationship between the values of SvcO2 and SrcO2 in lung resection with one lung ventilation (OLV) and changes in these variables and mean arterial pressure (MAP) and arterial oxygen saturation (SpO2) during the perioperative period. MATERIAL AND METHODS Prospective, observational study of 25 patients in whom pulmonary resection was performed with OLV. The values of MAP, SpO2, SvO2, and SrcO2 were recorded at 6 different times: 1)baseline; 2)double-lung ventilation before the OLV (VBP1); 3)during OLV; 4)after double-lung ventilation (VBP2); 5)30minutes after surgery, and 6)6hours after surgery. RESULTS The SrcO2 showed a significant increase from baseline to starting ventilation (65.72±9.05% vs 70.44±7.24%; P<.01). There were no significant changes in their values at the different intraoperative times. Post-operatively, as in the case of the SvcO2, a significant decrease (P<.001) of its value compared with the previous value was observed. CONCLUSIONS SrcO2 showed a significant increase after induction of anaesthesia and initiation of mechanical ventilation compared to baseline, and a significant decrease at the end of surgery after extubation in the immediate postoperative period. Being a tissue monitoring, non-invasive technique and with continuous values it can alert the clinician of changes in the ratio of oxygen consumption (VO2) to oxygen delivery (DO2) at times of greatest risk, such as OLV, extubation, and the early postoperative period.
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Affiliation(s)
- F Ramasco
- Servicio de Anestesiología, Reanimación y Terapia del Dolor, Hospital Universitario de La Princesa, Madrid, España
| | - R Méndez
- Servicio de Anestesiología, Reanimación y Terapia del Dolor, Hospital Universitario de La Princesa, Madrid, España.
| | - A Planas
- Servicio de Anestesiología, Reanimación y Terapia del Dolor, Hospital Universitario de La Princesa, Madrid, España
| | - L Vega
- Unidad de Apoyo Metodológico, Hospital Universitario de La Princesa, Madrid, España
| | - A Gómez
- Servicio de Anestesiología, Reanimación y Terapia del Dolor, Hospital Universitario de La Princesa, Madrid, España
| | - S Santidrián
- Servicio de Anestesiología, Reanimación y Terapia del Dolor, Hospital Universitario de La Princesa, Madrid, España
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33
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Pozzo T, Romero-García J, Faijes M, Planas A, Nordberg Karlsson E. Rational design of a thermostable glycoside hydrolase from family 3 introduces β-glycosynthase activity. Glycobiology 2016; 27:165-175. [DOI: 10.1093/glycob/cww081] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2016] [Revised: 07/28/2016] [Accepted: 07/29/2016] [Indexed: 11/12/2022] Open
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34
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Codera V, Edgar KJ, Faijes M, Planas A. Functionalized Celluloses with Regular Substitution Pattern by Glycosynthase-Catalyzed Polymerization. Biomacromolecules 2016; 17:1272-9. [DOI: 10.1021/acs.biomac.5b01453] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Victoria Codera
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
| | - Kevin J. Edgar
- Department
of Sustainable Biomaterials, Macromolecules
and Interfaces Institute, and Institute for
Critical Technologies and Applied Science, Virginia Tech, Blacksburg, Virginia 24061, United States
| | - Magda Faijes
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
| | - Antoni Planas
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
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35
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Bissaro B, Durand J, Biarnés X, Planas A, Monsan P, O’Donohue MJ, Fauré R. Molecular Design of Non-Leloir Furanose-Transferring Enzymes from an α-l-Arabinofuranosidase: A Rationale for the Engineering of Evolved Transglycosylases. ACS Catal 2015. [DOI: 10.1021/acscatal.5b00949] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Bastien Bissaro
- Université
de Toulouse; INSA, UPS, INP; LISBP, 135 Avenue de Rangueil, F-31077 Toulouse, France
- INRA, UMR792,
Ingénierie des Systèmes Biologiques et des Procédés, F-31400 Toulouse, France
- CNRS, UMR5504, F-31400 Toulouse, France
| | - Julien Durand
- Université
de Toulouse; INSA, UPS, INP; LISBP, 135 Avenue de Rangueil, F-31077 Toulouse, France
- INRA, UMR792,
Ingénierie des Systèmes Biologiques et des Procédés, F-31400 Toulouse, France
- CNRS, UMR5504, F-31400 Toulouse, France
| | - Xevi Biarnés
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta, 08017 Barcelona, Spain
| | - Antoni Planas
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta, 08017 Barcelona, Spain
| | - Pierre Monsan
- Université
de Toulouse; INSA, UPS, INP; LISBP, 135 Avenue de Rangueil, F-31077 Toulouse, France
- INRA, UMR792,
Ingénierie des Systèmes Biologiques et des Procédés, F-31400 Toulouse, France
- CNRS, UMR5504, F-31400 Toulouse, France
- Toulouse White
Biotechnology, UMS INRA/INSA 1337, UMS CNRS/INSA 3582, 3 Rue des Satellites, 31400 Toulouse, France
| | - Michael J. O’Donohue
- Université
de Toulouse; INSA, UPS, INP; LISBP, 135 Avenue de Rangueil, F-31077 Toulouse, France
- INRA, UMR792,
Ingénierie des Systèmes Biologiques et des Procédés, F-31400 Toulouse, France
- CNRS, UMR5504, F-31400 Toulouse, France
| | - Régis Fauré
- Université
de Toulouse; INSA, UPS, INP; LISBP, 135 Avenue de Rangueil, F-31077 Toulouse, France
- INRA, UMR792,
Ingénierie des Systèmes Biologiques et des Procédés, F-31400 Toulouse, France
- CNRS, UMR5504, F-31400 Toulouse, France
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36
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Albesa‐Jové D, Mendoza F, Rodrigo‐Unzueta A, Gomollón‐Bel F, Cifuente JO, Urresti S, Comino N, Gómez H, Romero‐García J, Lluch JM, Sancho‐Vaello E, Biarnés X, Planas A, Merino P, Masgrau L, Guerin ME. A Native Ternary Complex Trapped in a Crystal Reveals the Catalytic Mechanism of a Retaining Glycosyltransferase. Angew Chem Int Ed Engl 2015; 54:9898-902. [DOI: 10.1002/anie.201504617] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2015] [Indexed: 12/29/2022]
Affiliation(s)
- David Albesa‐Jové
- Unidad de Biofísica, Consejo Superior de Investigaciones Científicas ‐ Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC‐UPV/EHU) and Departamento de Bioquímica, Universidad del País Vasco, 48940 Leioa, Bizkaia (Spain)
- IKERBASQUE, 48013 Bilbao (Spain)
| | - Fernanda Mendoza
- IBB and Departament de Química, Universitat Autònoma de Barcelona, 08193 Bellaterra (Spain)
| | - Ane Rodrigo‐Unzueta
- Unidad de Biofísica, Consejo Superior de Investigaciones Científicas ‐ Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC‐UPV/EHU) and Departamento de Bioquímica, Universidad del País Vasco, 48940 Leioa, Bizkaia (Spain)
| | - Fernando Gomollón‐Bel
- Laboratorio de Síntesis Asimétrica, Departamento de Síntesis y Estructura de Biomoléculas, Instituto de Síntesis Química y Catálisis Homogénea (ISQCH), Universidad de Zaragoza, CSIC, 50009 Zaragoza, Aragón (Spain)
| | - Javier O. Cifuente
- Unidad de Biofísica, Consejo Superior de Investigaciones Científicas ‐ Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC‐UPV/EHU) and Departamento de Bioquímica, Universidad del País Vasco, 48940 Leioa, Bizkaia (Spain)
| | - Saioa Urresti
- Unidad de Biofísica, Consejo Superior de Investigaciones Científicas ‐ Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC‐UPV/EHU) and Departamento de Bioquímica, Universidad del País Vasco, 48940 Leioa, Bizkaia (Spain)
| | - Natalia Comino
- Unidad de Biofísica, Consejo Superior de Investigaciones Científicas ‐ Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC‐UPV/EHU) and Departamento de Bioquímica, Universidad del País Vasco, 48940 Leioa, Bizkaia (Spain)
| | - Hansel Gómez
- IBB and Joint BSC‐CRG‐IRB Program in Computational Biology, IRB Barcelona, 08028 Barcelona (Spain)
| | - Javier Romero‐García
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08017 Barcelona (Spain)
| | - José M. Lluch
- IBB and Departament de Química, Universitat Autònoma de Barcelona, 08193 Bellaterra (Spain)
| | - Enea Sancho‐Vaello
- Unidad de Biofísica, Consejo Superior de Investigaciones Científicas ‐ Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC‐UPV/EHU) and Departamento de Bioquímica, Universidad del País Vasco, 48940 Leioa, Bizkaia (Spain)
| | - Xevi Biarnés
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08017 Barcelona (Spain)
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08017 Barcelona (Spain)
| | - Pedro Merino
- Laboratorio de Síntesis Asimétrica, Departamento de Síntesis y Estructura de Biomoléculas, Instituto de Síntesis Química y Catálisis Homogénea (ISQCH), Universidad de Zaragoza, CSIC, 50009 Zaragoza, Aragón (Spain)
| | - Laura Masgrau
- Institut de Biotecnologia i de Biomedicina (IBB) (Spain)
| | - Marcelo E. Guerin
- Unidad de Biofísica, Consejo Superior de Investigaciones Científicas ‐ Universidad del País Vasco/Euskal Herriko Unibertsitatea (CSIC‐UPV/EHU) and Departamento de Bioquímica, Universidad del País Vasco, 48940 Leioa, Bizkaia (Spain)
- IKERBASQUE, 48013 Bilbao (Spain)
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37
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Albesa-Jové D, Mendoza F, Rodrigo-Unzueta A, Gomollón-Bel F, Cifuente JO, Urresti S, Comino N, Gómez H, Romero-García J, Lluch JM, Sancho-Vaello E, Biarnés X, Planas A, Merino P, Masgrau L, Guerin ME. A Native Ternary Complex Trapped in a Crystal Reveals the Catalytic Mechanism of a Retaining Glycosyltransferase. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201504617] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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38
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Val-Cid C, Biarnés X, Faijes M, Planas A. Structural-Functional Analysis Reveals a Specific Domain Organization in Family GH20 Hexosaminidases. PLoS One 2015; 10:e0128075. [PMID: 26024355 PMCID: PMC4449183 DOI: 10.1371/journal.pone.0128075] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2014] [Accepted: 04/23/2015] [Indexed: 12/20/2022] Open
Abstract
Hexosaminidases are involved in important biological processes catalyzing the hydrolysis of N-acetyl-hexosaminyl residues in glycosaminoglycans and glycoconjugates. The GH20 enzymes present diverse domain organizations for which we propose two minimal model architectures: Model A containing at least a non-catalytic GH20b domain and the catalytic one (GH20) always accompanied with an extra α-helix (GH20b-GH20-α), and Model B with only the catalytic GH20 domain. The large Bifidobacterium bifidum lacto-N-biosidase was used as a model protein to evaluate the minimal functional unit due to its interest and structural complexity. By expressing different truncated forms of this enzyme, we show that Model A architectures cannot be reduced to Model B. In particular, there are two structural requirements general to GH20 enzymes with Model A architecture. First, the non-catalytic domain GH20b at the N-terminus of the catalytic GH20 domain is required for expression and seems to stabilize it. Second, the substrate-binding cavity at the GH20 domain always involves a remote element provided by a long loop from the catalytic domain itself or, when this loop is short, by an element from another domain of the multidomain structure or from the dimeric partner. Particularly, the lacto-N-biosidase requires GH20b and the lectin-like domain at the N- and C-termini of the catalytic GH20 domain to be fully soluble and functional. The lectin domain provides this remote element to the active site. We demonstrate restoration of activity of the inactive GH20b-GH20-α construct (model A architecture) by a complementation assay with the lectin-like domain. The engineering of minimal functional units of multidomain GH20 enzymes must consider these structural requirements.
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Affiliation(s)
- Cristina Val-Cid
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona, Spain
| | - Xevi Biarnés
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona, Spain
| | - Magda Faijes
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona, Spain
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39
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Vilaró M, Nieto J, La Parra JR, Almeida MR, Ballesteros A, Planas A, Arsequell G, Valencia G. Tuning transthyretin amyloidosis inhibition properties of iododiflunisal by combinatorial engineering of the nonsalicylic ring substitutions. ACS Comb Sci 2015; 17:32-8. [PMID: 25394203 DOI: 10.1021/co5001234] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Two series of iododiflunisal and diflunisal analogues have been obtained by using a two step sequential reaction solution-phase parallel synthesis. The synthesis combined an aqueous Suzuki-Miyaura cross-coupling and a mild electrophilic aromatic iodination step using a new polymer-supported iodonium version of Barluenga's reagent. From a selected set of 77 noniodinated and 77 iodinated diflunisal analogues, a subset of good transthyretin amyloid inhibitors has been obtained with improved turbidimetry inhibition constants, high binding affinity to transthyretin, and good selectivity for TTR compared to other thyroxine binding proteins.
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Affiliation(s)
- Maria Vilaró
- Unit
of Glycoconjugate Chemistry, I.Q.A.C.-C.S.I.C., 08034 Barcelona, Spain
| | - Joan Nieto
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08022 Barcelona, Spain
| | - Juan Ramón La Parra
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08022 Barcelona, Spain
| | - Maria Rosário Almeida
- IBMC-Instituto
de Biologia Molecular e Celular and ICBAS-Instituto de Ciências
Biomédicas de Abel Salazar, Universidade do Porto, 4150-180 Porto, Portugal
| | - Alfredo Ballesteros
- Instituto
Universitario de Química Organometálica “Enrique
Moles”, Universidad de Oviedo, 33071 Oviedo, Spain
| | - Antoni Planas
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, 08022 Barcelona, Spain
| | - Gemma Arsequell
- Unit
of Glycoconjugate Chemistry, I.Q.A.C.-C.S.I.C., 08034 Barcelona, Spain
| | - Gregorio Valencia
- Unit
of Glycoconjugate Chemistry, I.Q.A.C.-C.S.I.C., 08034 Barcelona, Spain
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40
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Vilà-Rico M, Contesse S, Barcena Llona JE, Rojas-García R, Valle F, Planas A, Canals F, Campistol JM. Mass spectrometry analysis of transthyretin (TTR) post-translational modifications (PTMs) in hereditary ATTR: a case-control Spanish experience. Orphanet J Rare Dis 2015. [PMCID: PMC4642106 DOI: 10.1186/1750-1172-10-s1-p53] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/03/2022] Open
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41
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Andrés E, Albesa-Jové D, Biarnés X, Moerschbacher BM, Guerin ME, Planas A. Structural Basis of Chitin Oligosaccharide Deacetylation. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201400220] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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42
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Andrés E, Albesa-Jové D, Biarnés X, Moerschbacher BM, Guerin ME, Planas A. Frontispiz: Structural Basis of Chitin Oligosaccharide Deacetylation. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201482771] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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43
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Andrés E, Albesa-Jové D, Biarnés X, Moerschbacher BM, Guerin ME, Planas A. Frontispiece: Structural Basis of Chitin Oligosaccharide Deacetylation. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/anie.201482771] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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44
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Andrés E, Albesa-Jové D, Biarnés X, Moerschbacher BM, Guerin ME, Planas A. Structural basis of chitin oligosaccharide deacetylation. Angew Chem Int Ed Engl 2014; 53:6882-7. [PMID: 24810719 DOI: 10.1002/anie.201400220] [Citation(s) in RCA: 69] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2014] [Revised: 04/02/2014] [Indexed: 01/28/2023]
Abstract
Cell signaling and other biological activities of chitooligosaccharides (COSs) seem to be dependent not only on the degree of polymerization, but markedly on the specific de-N-acetylation pattern. Chitin de-N-acetylases (CDAs) catalyze the hydrolysis of the acetamido group in GlcNAc residues of chitin, chitosan, and COS. A major challenge is to understand how CDAs specifically define the distribution of GlcNAc and GlcNH2 moieties in the oligomeric chain. We report the crystal structure of the Vibrio cholerae CDA in four relevant states of its catalytic cycle. The two enzyme complexes with chitobiose and chitotriose represent the first 3D structures of a CDA with its natural substrates in a productive mode for catalysis, thereby unraveling an induced-fit mechanism with a significant conformational change of a loop closing the active site. We propose that the deacetylation pattern exhibited by different CDAs is governed by critical loops that shape and differentially block accessible subsites in the binding cleft of CE4 enzymes.
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Affiliation(s)
- Eduardo Andrés
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona (Spain)
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45
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Phay M, Blinder V, Macy S, Greene MJ, Wooliver DC, Liu W, Planas A, Walsh DM, Connors LH, Primmer SR, Planque SA, Paul S, O'Nuallain B. Transthyretin Aggregate-Specific Antibodies Recognize Cryptic Epitopes on Patient-Derived Amyloid Fibrils. Rejuvenation Res 2014; 17:97-104. [DOI: 10.1089/rej.2013.1524] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Affiliation(s)
- Monichan Phay
- The Center for Neurologic Diseases, Brigham and Women's Hospital and Harvard Medical School, Boston, Massachusetts
| | - Veronika Blinder
- The Center for Neurologic Diseases, Brigham and Women's Hospital and Harvard Medical School, Boston, Massachusetts
| | - Sallie Macy
- Department of Medicine, University of Tennessee Graduate School of Medicine, Knoxville, Tennessee
| | - Michael J. Greene
- Amyloidosis Center, Boston University School of Medicine, Boston, Massachusetts
| | - Daniel C. Wooliver
- Department of Medicine, University of Tennessee Graduate School of Medicine, Knoxville, Tennessee
| | - Wen Liu
- The Center for Neurologic Diseases, Brigham and Women's Hospital and Harvard Medical School, Boston, Massachusetts
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona, Spain
| | - Dominic M. Walsh
- The Center for Neurologic Diseases, Brigham and Women's Hospital and Harvard Medical School, Boston, Massachusetts
| | - Lawreen H. Connors
- Amyloidosis Center, Boston University School of Medicine, Boston, Massachusetts
| | | | - Stephanie A. Planque
- Chemical Immunology Research Center, University of Texas-Houston Medical School, Houston, Texas
| | - Sudhir Paul
- Chemical Immunology Research Center, University of Texas-Houston Medical School, Houston, Texas
| | - Brian O'Nuallain
- The Center for Neurologic Diseases, Brigham and Women's Hospital and Harvard Medical School, Boston, Massachusetts
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46
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Abad S, Pérez X, Planas A, Turon X. Rapid monitoring of glycerol in fermentation growth media: Facilitating crude glycerol bioprocess development. Talanta 2014; 121:210-4. [PMID: 24607129 DOI: 10.1016/j.talanta.2013.12.022] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2013] [Revised: 12/05/2013] [Accepted: 12/11/2013] [Indexed: 10/25/2022]
Abstract
Recently, the need for crude glycerol valorisation from the biodiesel industry has generated many studies for practical and economic applications. Amongst them, fermentations based on glycerol media for the production of high value metabolites are prominent applications. This has generated a need to develop analytical techniques which allow fast and simple glycerol monitoring during fermentation. The methodology should be fast and inexpensive to be adopted in research, as well as in industrial applications. In this study three different methods were analysed and compared: two common methodologies based on liquid chromatography and enzymatic kits, and the new method based on a DotBlot assay coupled with image analysis. The new methodology is faster and cheaper than the other conventional methods, with comparable performance. Good linearity, precision and accuracy were achieved in the lower range (10 or 15 g/L to depletion), the most common range of glycerol concentrations to monitor fermentations in terms of growth kinetics.
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Affiliation(s)
- Sergi Abad
- Bioengineering Department, Institut Químic de Sarrià (IQS), Universitat Ramon Llull. Via Augusta 390, 08017 Barcelona, Spain
| | - Xavier Pérez
- Bioengineering Department, Institut Químic de Sarrià (IQS), Universitat Ramon Llull. Via Augusta 390, 08017 Barcelona, Spain
| | - Antoni Planas
- Bioengineering Department, Institut Químic de Sarrià (IQS), Universitat Ramon Llull. Via Augusta 390, 08017 Barcelona, Spain
| | - Xavier Turon
- Bioengineering Department, Institut Químic de Sarrià (IQS), Universitat Ramon Llull. Via Augusta 390, 08017 Barcelona, Spain.
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47
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Cotrina EY, Pinto M, Bosch L, Vilà M, Blasi D, Quintana J, Centeno NB, Arsequell G, Planas A, Valencia G. Modulation of the Fibrillogenesis Inhibition Properties of Two Transthyretin Ligands by Halogenation. J Med Chem 2013; 56:9110-21. [DOI: 10.1021/jm401061w] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Ellen Y. Cotrina
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
| | - Marta Pinto
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
| | - Lluís Bosch
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
| | - Marta Vilà
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
| | - Daniel Blasi
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
| | - Jordi Quintana
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
| | - Nuria B. Centeno
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
| | - Gemma Arsequell
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
| | - Antoni Planas
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
| | - Gregorio Valencia
- Laboratory of Biochemistry, Bioengineering
Department, Institut Químic de Sarrià, Universitat Ramon Llull, ‡Pharmacoinformatics Group, Research
Programme on Biomedical Informatics (GRIB), Department of Experimental
and Health Sciences, Universitat Pompeu Fabra, IMIM (Hospital del Mar Medical Research Institute)-Universitat Pompeu Fabra, §Institut de Química Avançada de Catalunya
(IQAC−CSIC), ⊥Drug Discovery Platform, Parc Científic de Barcelona, Barcelona, Spain
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48
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Rojas-Cervellera V, Ardèvol A, Boero M, Planas A, Rovira C. Formation of a covalent glycosyl-enzyme species in a retaining glycosyltransferase. Chemistry 2013; 19:14018-23. [PMID: 24108590 DOI: 10.1002/chem.201302898] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2013] [Indexed: 01/11/2023]
Abstract
Elusive glycosyl-enzyme adduct: Using classical MD simulations and QM/MM metadynamics, the long-time sought glycosyl-enzyme covalent intermediate of a retaining glycosyltransferase, with a putative nucleophile residue in the active site, has been trapped (MD=molecular dynamics; QM/MM=quantum mechanics/molecular mechanics).
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Affiliation(s)
- Víctor Rojas-Cervellera
- Departament de Química Orgànica and Institut de Química Teòrica i Computacional (IQTCUB), Universitat de Barcelona, Diagonal 647, 08028 Barcelona (Spain)
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49
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Mora-Buyé N, Faijes M, Planas A. An engineered E.coli strain for the production of glycoglycerolipids. Metab Eng 2012; 14:551-9. [DOI: 10.1016/j.ymben.2012.06.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2012] [Revised: 06/12/2012] [Accepted: 06/19/2012] [Indexed: 10/28/2022]
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50
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van Lieshout JFT, Gutiérrez ONP, Vroom W, Planas A, de Vos WM, van der Oost J, Koutsopoulos S. Thermal stabilization of an endoglucanase by cyclization. Appl Biochem Biotechnol 2012; 167:2039-53. [PMID: 22653681 PMCID: PMC3416981 DOI: 10.1007/s12010-012-9674-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2012] [Accepted: 04/09/2012] [Indexed: 10/28/2022]
Abstract
An intein-driven protein splicing approach allowed for the covalent linkage between the N- and C-termini of a polypeptide chain to create circular variants of the endo-β-1,3-1,4-glucanase, LicA, from Bacillus licheniformis. Two circular variants, LicA-C1 and LicA-C2, which have connecting loops of 20 and 14 amino acids, respectively, showed catalytic activities that are approximately two and three times higher, respectively, compared to that of the linear LicA (LicA-L1). The thermal stability of the circular variants was significantly increased compared to the linear form. Whereas the linear glucanase lost half of its activity after 3 min at 65 °C, the two circular variants have 6-fold (LicA-C1) and 16-fold (LicA-C2) increased half-life time of inactivation. In agreement with this, fluorescence spectroscopy and differential scanning calorimetry studies revealed that circular enzymes undergo structural changes at higher temperatures compared to that of the linear form. The effect of calcium on the conformational stability and function of the circular LicAs was also investigated, and we observed that the presence of calcium ions results in increased thermal stability. The impact of the length of the designed loops on thermal stability of the circular proteins is discussed, and it is suggested that cyclization may be an efficient strategy for the increased stability of proteins.
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Affiliation(s)
- Johan F. T. van Lieshout
- Laboratory of Microbiology, Wageningen University, Dreijenplein 10, 6703 HB Wageningen, the Netherlands
| | - Odette N. Pérez Gutiérrez
- Laboratory of Microbiology, Wageningen University, Dreijenplein 10, 6703 HB Wageningen, the Netherlands
| | - Wietse Vroom
- Laboratory of Microbiology, Wageningen University, Dreijenplein 10, 6703 HB Wageningen, the Netherlands
| | - Antoni Planas
- Laboratory of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
| | - Willem M. de Vos
- Laboratory of Microbiology, Wageningen University, Dreijenplein 10, 6703 HB Wageningen, the Netherlands
| | - John van der Oost
- Laboratory of Microbiology, Wageningen University, Dreijenplein 10, 6703 HB Wageningen, the Netherlands
| | - Sotirios Koutsopoulos
- Laboratory of Microbiology, Wageningen University, Dreijenplein 10, 6703 HB Wageningen, the Netherlands
- Center for Biomedical Engineering, NE47-307, Massachusetts Institute of Technology, Cambridge, MA 02139-4307 USA
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