Publications


For an updated list check Pubmed

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24- "Synthetic crossfeeding cocultures in yeast: computational model of autoregulation and design of a tryptophan export device"

Alan Bush, Manuel Giménez, Alicia Grande, Luciano Gastón Morosi, Verónica Parasco, María Parreño, Mario Rugiero, Germán Sabio, Alejandro Colman-Lerner, Alejandro D. Nadra# and Ignacio Enrique Sánchez#.
Journal of Synthetic Biology, Volume 2015, Article ID 178514, http://dx.doi.org/10.1155/2015/178514.

23- Engineered chimeras reveal the structural basis of hexacoordination in globins: A case study of neuroglobin and myoglobin.

Ignacio Boron; Luciana Capece; Francesca Pennachietti; Diana E Wetzler; Stefano Bruno; Stefania Abbruzzetti; Lucia Chisari; Francisco J Luque; Cristiano Viappiani; Marcelo A Marti; Dario A Estrin; Alejandro Nadra

Biochim Biophys Acta. 2015 Jan;1850(1):169-77. doi: 10.1016/j.bbagen.2014.10.006

According to Greek mythology, Chimera is a monster made from parts from more than one animal. Parts' fusion presents a sense, when they give a function to the beast.  In the lab, we made Chimeric proteins to study its function.

22- "Regulation of PKA activity by an autophosphorylation mechanism in Saccharomyces cerevisiae"

Solari CA, Tudisca V, Pugliessi M, Nadra AD, Moreno S, Portela P.
Biochem J. 2014 Jun 20


21-"Molecular basis of thermal stability in truncated (2/2) hemoglobins"

Bustamante JP, Bonamore A, Nadra AD, Sciamanna N, Boffi A, Estrin DA, Boechi L.
Biochim Biophys Acta. 2014 Jul;1840(7):2281-8


20- "Circadian Period Integrates Network Information Through Activation of the BMPSignaling Pathway"

Beckwith EJ, Gorostiza EA, Berni J, Rezával C, Pérez-Santángelo A, Nadra AD, Ceriani MF.
PLoS Biol. 2013 Dec;11(12):e1001733. doi: 10.1371/journal.pbio.1001733


19- "Biophysical characterisation of neuroglobin of the icefish, a natural knockout for hemoglobin and myoglobin. Comparison with human neuroglobin.”


Giordano D, Boron I, Abbruzzetti S, Van Leuven W, Nicoletti FP, Forti F, Bruno S, Cheng CH, Moens L, di Prisco G, Nadra AD, Estrin D, Smulevich G, Dewilde S, Viappiani C, Verde C.

PLoS One. 2012;7(12):e44508



18- "O-glycosylated cell wall proteins are essential in root hair growth".


Velasquez SM, Ricardi MM, Dorosz JG, Fernandez PV, Nadra AD, Pol-Fachin L, Egelund J, Gille S, Harholt J, Ciancia M, Verli H, Pauly M, Bacic A, Olsen CE, Ulvskov P, Petersen BL, Somerville C, Iusem ND, Estevez JM.


Science. 2011 Jun 17;332(6036):1401-3.


17- "DNA-Binding Specificity Prediction with FoldX."

Nadra AD, Serrano L, Alibés A.

Methods Enzymol. 2011;498:3-18.


16- “Structure and dynamics of Antarctic fish neuroglobin assessed by computer simulations”

Ignacio Boron, Roberta Russo, Leonardo Boechi, C.-H. Christina Cheng, Guido di Prisco, Darío A. Estrin, Cinzia Verde and Alejandro D. Nadra#.

IUBMB Life. 2011 Mar;63(3):206-13..


15- ”Structure-based analysis of five novel disease-causing mutations in 21-hydroxylase-deficient patients ”

Minutolo C*, Nadra AD*, Fernández CF, Taboas M, Buzzalino N, Casali B, Belli S, Charreau E, Alba L, Dain L.

PLoS One. 2011 Jan 11;6(1):e15899.


14- “Using protein design algorithms to understand the molecular basis of disease caused by protein-DNA interactions: the Pax6 example”

Andreu Alibés*, Alejandro D. Nadra*, Federico de Masi, Martha L. Bulyk, Francois Stricher, Luis Serrano. 

Nucleic Acids Res. 2010 Aug 4. [Epub ahead of print]. doi:10.1093/nar/gkq683


13- “Proteins dynamics and ligand migration interplay as studied by computer simulation”.

Arroyo-Mañez P, Bikiel DE, Boechi L, Capece L, Di Lella S, Estrin DA, Martí MA, Moreno DM, Nadra AD, Petruk AA..

Biochim Biophys Acta. 2010 Aug 23. [Epub ahead of print].


12- “Indirect DNA readout on the protein side: coupling between histidine protonation, global structural cooperativity, dynamics and DNA binding of the human papillomavirus type 16 E2C domain”

Tomasso Eliseo, Ignacio E. Sánchez, Alejandro D. Nadra, Mariano Dellarole, Maurizio Paci, Gonzalo de Prat Gay and Daniel O. Cicero.

J Mol Biol. 2009 May 1;388(2):327-44. 


11- “A strained DNA binding helix is conserved for site recognition, folding nucleation, and conformational modulation”

Wetzler DE, Gallo M, Melis R, Eliseo T, Nadra AD, Ferreiro DU, Paci M, Sánchez IE, Cicero DO, de Prat Gay G.

Biopolymers. 2009 Jun;91(6):432-43


10- “High pressure reveals structural determinants for globin hexacoordination: Neuroglobin and myoglobin cases”

Capece L, Marti MA, Bidon-Chanal A, Nadra A, Luque FJ, Estrin DA.

Proteins. 2009 Jun;75(4):885-94.


9- “Crystal structure of I-DmoI in complex with its target DNA provides new insights into meganuclease engineering”

Marcaida MJ, Prieto J, Redondo P, Nadra AD, Alibés A, Serrano L, Grizot S, Duchateau P, Pâques F, Blanco FJ, Montoya G.

Proc Natl Acad Sci U S A. 2008 Nov 4;105(44):16888-93.


8- “Exploring the molecular basis of heme coordination in human neuroglobin”. 

Alejandro D. Nadra, Marcelo A. Marti, Alessandra Pesce, Martino Bolognesi, and Dario A. Estrin.

Proteins. 2008 May 1;71(2):695-705.


7- “Modeling heme proteins using atomistic simulations” 

Bikiel DE, Boechi L, Capece L, Crespo A, De Biase PM, Di Lella S, González Lebrero MC, Martí MA, Nadra AD, Perissinotti LL, Scherlis DA, Estrin DA. 

Phys Chem Chem Phys. 2006 Dec 28;8(48):5611-28.


6- “Structural and thermodynamic basis for the enhanced transcriptional control by the human papillomavirus strain-16 E2 protein”

Cicero DO, Nadra AD, Eliseo T, Dellarole M, Paci M, de Prat-Gay G.

Biochemistry. 2006 May 30;45(21):6551-60.

5- “Free energy contributions to direct readout of DNA”

Diego U. Ferreiro, Mariano Dellarole, Alejandro D. Nadra, and Gonzalo de Prat-Gay.

J Biol Chem. 2005 Sep 16;280(37):32480-4. 


4- “The folding mechanism of a dimeric ß-barrel domain”

Gonzalo de Prat-Gay, Alejandro D. Nadra, Fernando J. Corrales-Izquierdo, Leonardo G. Alonso, Diego U. Ferreiro, and Yu-Keung Mok.

J Mol Biol. 2005 Aug 19;351(3):672-82.


3- “Solution structure of the HPV-16 E2 DNA binding domain, a transcriptional regulator with a dimeric b-barrel fold”

Alejandro D. Nadra*, Tommaso Eliseo*, Yu-Keung Mok, Fabio C. L. Almeida, Mark Bycroft, Maurizio Paci, Gonzalo de Prat-Gay and Daniel O. Cicero.

J Biomol NMR. 2004 Oct;30(2):211-4.


2- “High-risk (HPV16) human papillomavirus E7 oncoprotein is highly stable and extended, with conformational transitions exposing hydrophobic surfaces that could explain its multiple cellular binding partners”.

Leonardo G. Alonso, Maria M. García-Alai, Alejandro D. Nadra, Alicia N. Lapeña, Fabio L. Almeida, Peter Gualfetti, and Gonzalo de Prat-Gay.

Biochemistry 2002, 41, 10510-10518.


1- "Distinctive cognate sequence discrimination, bound DNA conformation and binding modes in the E2 C-terminal domains from prototype human and bovine papillomaviruses"

Diego U. Ferreiro, L. Mauricio T. R. Lima, Alejandro D. Nadra, Leonardo G. Alonso, Fernando A. Goldbaum & Gonzalo de Prat-Gay.

Biochemistry. 2000 Nov 28;39(47):14692-14701.


#Corresponding author

* Shared first authorship