PUBLICATIONS

This is the list of publications from the PB³ Lab (since 2016) and from the PI during his PhD and position as researcher and independent researcher (before 2016).

2020

1. Galaz-Davison P, Molina JA, Silletti S, Komives EA, Knauer SH, Artsimovitch I* & Ramírez-Sarmiento CA*. (2020) Differential local stability governs the metamorphic fold switch of bacterial virulence factor RfaH. Biophys J,118(1), 96-104.

2019

1. Werner N, Ramirez-Sarmiento CA & Agosin E*. (2019) Protein engineering of carotenoid cleavage dioxygenases to optimize β-ionone biosynthesis in yeast cell factories. Food Chem, 299, 125089.
2. Altamirano F, Schiattarella GG, French KM, Kim SY, Engelbelger F, Kyrychenko S, Villalobos E, Tong D, Schneider JW, Ramírez-Sarmiento CA, Lavandero S, Gillette TG & Hill JA*. (2019). Polycystin-1 assembles with Kv channels to govern cardiomyocyte repolarization and contractility. Circulation, 140, 921–936.
3. Medina E, Villalobos P, Coñuecar R, Ramírez-Sarmiento CA*, Babul J*. (2019). The protonation state of an evolutionarily conserved histidine modulates domain swapping stability of FoxP1. Sci Rep, 9(1), 5441.

2018

1. Herrera-Morande A, Castro-Fernandez V, Merino F, Ramirez-Sarmiento CA, Fernandez FJ, Vega MC* & Guixé V* (2018). An evolutionary protein topology permutation determines substrate-binding mechanism in homologous enzymes. Biochim Biophys Acta, 1862(12), 2869–2878.
2. Acevedo W, Ramírez-Sarmiento CA & Agosín E*. (2018). Identifying the Interactions between Natural, Non-Caloric Sweeteners and The Human Sweet Receptor by Molecular Docking. Food Chem, 264, 164–171.
3. Ramírez-Sarmiento CA & Komives EA*. (2018). Hydrogen-Deuterium Exchange Mass Spectrometry Reveals Folding and Allostery in Protein-Protein Interactions. Methods, 144, 43–52.
4. Saavedra JM, Azócar MA, Rodríguez V, Ramírez-Sarmiento CA, Andrews BA, Asenjo JA & Parra LP*. (2018). Relevance of local flexibility near the active site for enzymatic catalysis: Biochemical characterization and engineering of cellulase Cel5A from Bacillus agaradherans. Biotechnology J, 13, e1700669.
5. Fecker T, Galaz-Davison P, Engelberger F, Narui Y, Sotomayor M*, Parra LP* & Ramírez-Sarmiento CA*.(2018). Active Site Flexibility as a Hallmark for Efficient PET Degradation by I. sakaiensisPETase. Biophys J, 114(6), 1302–1312.

2017

1. Monzon AM*, Hasenahuer MA, Mancini E, Coimbra N, Cravero F, Cáceres-Molina J, Ramírez-Sarmiento CA, Palopoli N*, Meysman P* & Parra RG*. (2017). Second ISCB Latin American Student Council Symposium (LA-SCS) 2016. F1000Research, 6.
2. Ramírez-Sarmiento CA*. (2017) “Riddle Me This”: Substrate Channeling Solves the Paradigms of cAMP-dependent Activation of PKA. Biophys J, 112(12), 2451–2453.
3. Carvajal AI, Vallejos G, Komives EA, Castro-Fernández V, Leonardo DA, Garratt RC, Ramírez-Sarmiento CA*& Babul J*. (2017) Unusual dimerization of a BcCsp mutant leads to reduced conformational dynamics. FEBS J, 284(12), 1882–1896.

2016

1. Santiago M, Ramirez-Sarmiento CA, Zamora RA & Parra LP*. (2016) Discovery, Molecular Mechanisms, and Industrial Applications of Cold-Active Enzymes. Front Microbiol, 7(89), 352.
2. Schiffer JM, Malmstrom RD, Parnell J, Ramírez-Sarmiento C, Reyes J, Amaro RE* & Komives EA*. (2016) Model of the Ankyrin and SOCS Box Protein, ASB9, E3 Ligase Reveals a Mechanism for Dynamic Ubiquitin Transfer. Structure, 24(8), 1248–1256.
3. Medina E, Córdova C, Villalobos P, Reyes J, Komives EA, Ramírez-Sarmiento CA* & Babul J*. (2016)Three-Dimensional Domain Swapping Changes the Folding Mechanism of the Forkhead Domain of FoxP1. Biophys J, 110(11), 2349–2360.

2015

1. Abarca-Lagunas MJ, Rivas-Pardo JA, Ramírez-Sarmiento CA* & Guixé V*. (2015) Dissecting the functional roles of the conserved NXXE and HXE motifs of the ADP-dependent glucokinase from Thermococcus litoralis. FEBS Lett, 589(21), 3271–3276.
2. Ramírez-Sarmiento CA*, Noel JK, Valenzuela SL & Artsimovitch I*.(2015) Interdomain contacts control native state switching of RfaH on a dual-funneled landscape. PLOS Comp Biol, 11(7), e1004379.
3. Ramírez-Sarmiento CA, Baez M, Zamora RA, Balasubramaniam D, Babul J, Komives EA* & Guixé V*. (2015). The folding unit of phosphofructokinase-2 as defined by the biophysical properties of a monomeric mutant. Biophys J, 108(9), 2350–2361.
4. Rivas-Pardo JA*, Alegre-Cebollada J, Ramírez-Sarmiento CA, Fernandez J*& Guixé V*. (2015) Identifying sequential substrate binding at the single-molecule level by enzyme mechanical stabilization. ACS Nano, 9(4), 3996–4005.

2014

1. Castro-Fernandez V, Bravo-Moraga F, Ramírez-Sarmiento CA & Guixé V*. (2014) Emergence of pyridoxal phosphorylation through a promiscuous ancestor during the evolution of hydroxymethyl pyrimidine kinases. FEBS Lett, 588(17), 3068–3073.

2013

1. Navarro F, Ramírez-Sarmiento CA & Guixé V*. (2013) Catalytic and regulatory roles of species involved in metal–nucleotide equilibriums in human pyridoxal kinase. Biometals, 26(5), 805–812.
2. Baez M, Cabrera R, Pereira H, Blanco A, Villalobos P, Ramírez-Sarmiento CA, Caniuguir A, Guixé V, Garratt R & Babul J*. (2013) A ribokinase family conserved monovalent cation binding site enhances the MgATP-induced inhibition in E. coliphosphofructokinase-2. Biophys J, 105(1), 185–193.
3. Ramírez-Sarmiento CA, Baez M, Wilson CAM, Babul J, Komives EA* & Guixé V*. (2013) Observation of solvent penetration during cold denaturation of E. coliphosphofructokinase-2. Biophys J, 104(10), 2254–2263.
4. Sułkowska JI*, Noel JK, Ramírez-Sarmiento CA, Rawdon EJ, Millett KC & Onuchic JN. (2013) Knotting pathways in proteins. Biochem Soc Trans, 41(2), 523–527.

2012

1. Baez M, Wilson CAM, Ramírez-Sarmiento CA, Guixé V & Babul J*. (2012) Expanded monomeric intermediate upon cold and heat unfolding of phosphofructokinase-2 from Escherichia coli. Biophys J, 103(10), 2187–2194.