Publications

2019

Insights into protein sequencing with an α-Hemolysin nanopore by atomistic simulations 
SCIENTIFIC REPORTS
Di Muccio, Giovanni; Rossini, Aldo Eugenio; Di Marino, Daniele*; Zollo, Giuseppe; Chinappi, Mauro*
https://www.ncbi.nlm.nih.gov/pubmed/31015503

Discovery of ((1,2,4-oxadiazol-5-yl)pyrrolidin-3-yl)ureidyl derivatives as selective non-steroidal agonists of the G-protein coupled bile acid receptor-1
SCIENTIFIC REPORTS
Di Leva, Francesco Saverio; Festa, Carmen; Carino, Adriana; De Marino, Simona; Marchianò, Silvia; Di Marino, Daniele; Finamore, Claudia; Monti, Maria Chiara; Zampella, Angela; Fiorucci, Stefano; Limongelli, Vittorio
https://www.ncbi.nlm.nih.gov/pubmed/30792450

Handling FMRP and its molecular partners: Structural insights into Fragile X Syndrome
PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY
D’Annessa, Ilda; Cicconardi, Francesco; Di Marino, Daniele
https://www.ncbi.nlm.nih.gov/pubmed/30905341
*Cover issue

Deletion of the KH1 Domain of Fmr1 Leads to Transcriptional Alterations and Attentional Deficits in Rats
CEREBRAL CORTEX
Golden, Carla E M; Breen, Michael S; Koro, Lacin; Sonar, Sankalp; Niblo, Kristi; Browne, Andrew; Burlant, Natalie; Di Marino, Daniele; De Rubeis, Silvia; Baxter, Mark G; Buxbaum, Joseph D; Harony-Nicolas, Hala
https://www.ncbi.nlm.nih.gov/pubmed/30877790

2018

A Novel Mecp2 Y120D Knock-in Model Displays Similar Behavioral Traits But Distinct Molecular Features Compared to the Mecp2-Null Mouse Implying Precision Medicine for the Treatment of Rett Syndrome
MOLECULAR NEUROBIOLOGY
Gandaglia, Anna; Brivio, Elena; Carli, Sara; Palmieri, Michela; Bedogni, Francesco; Stefanelli, Gilda; Bergo, Anna; Leva, Barbara; Cattaneo, Chiara; Pizzamiglio, Lara; Cicerone, Marco; Bianchi, Veronica; Kilstrup-Nielsen, Charlotte; D’Annessa, Ilda; Di Marino, Daniele; D’Adamo, Patrizia; Antonucci, Flavia; Frasca, Angelisa; Landsberger, Nicoletta
https://www.ncbi.nlm.nih.gov/pubmed/30402709

Tyr120Asp mutation alters domain flexibility and dynamics of MeCP2 DNA binding domain leading to impaired DNA interaction: Atomistic characterization of a Rett syndrome causing mutation
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
D’Annessa, Ilda; Gandaglia, Anna; Brivio, Elena; Stefanelli, Gilda; Frasca, Angelisa; Landsberger, Nicoletta; Di Marino, Daniele
https://www.ncbi.nlm.nih.gov/pubmed/29428602

2017

Prospective investigation of FOXP1 syndrome
MOLECULAR AUTISM
Siper, Paige M.; De Rubeis, Silvia; Trelles, Maria Del Pilar; Durkin, Allison; Di Marino, Daniele; Muratet, François; Frank, Yitzchak; Lozano, Reymundo; Eichler, Evan E.; Kelly, Morgan; Beighley, Jennifer; Gerdts, Jennifer; Wallace, Arianne S.; Mefford, Heather C.; Bernier, Raphael A.; Kolevzon, Alexander; Buxbaum, Joseph D.
https://www.ncbi.nlm.nih.gov/pubmed/29090079

Evidence of Presynaptic Localization and Function of the c-Jun N-Terminal Kinase
NEURAL PLASTICITY
Biggi, Silvia; Buccarello, Lucia; Sclip, Alessandra; Lippiello, Pellegrino; Tonna, Noemi; Rumio, Cristiano; Di Marino, Daniele; Miniaci, Maria Concetta; Borsello, Tiziana
https://www.ncbi.nlm.nih.gov/pubmed/28367336

Chemosensory adaptations of the mountain fly Drosophila nigrosparsa (Insecta: Diptera) through genomics’ and structural biology’s lenses
SCIENTIFIC REPORTS
Cicconardi, Francesco; Di Marino, Daniele; Olimpieri, Pier Paolo; Arthofer, Wolfgang; Schlick-Steiner, Birgit C.; Steiner, Florian M.
https://www.ncbi.nlm.nih.gov/pubmed/28256589

2016

Brain phosphorylation of MeCP2 at serine 164 is developmentally regulated and globally alters its chromatin association
SCIENTIFIC REPORTS
Stefanelli, Gilda; Gandaglia, Anna; Costa, Mario; Cheema, Manjinder S.; Di Marino, Daniele; Barbiero, Isabella; Kilstrup-Nielsen, Charlotte; Ausió, Juan; Landsberger, Nicoletta
https://www.ncbi.nlm.nih.gov/pubmed/27323888

Genetic predisposition for beta cell fragility underlies type 1 and type 2 diabetes
NATURE GENETICS
Dooley, James; Tian, Lei; Schonefeldt, Susann; Delghingaro-Augusto, Viviane; Garcia-Perez, Josselyn E.; Pasciuto, Emanuela; Di Marino, Daniele; Carr, Edward J.; Oskolkov, Nikolay; Lyssenko, Valeriya; Franckaert, Dean; Lagou, Vasiliki; Overbergh, Lut; Vandenbussche, Jonathan; Allemeersch, Joke; Chabot-Roy, Genevieve; Dahlstrom, Jane E.; Laybutt, D. Ross; Petrovsky, Nikolai; Socha, Luis; Gevaert, Kris; Jetten, Anton M.; Lambrechts, Diether; Linterman, Michelle A.; Goodnow, Chris C.; Nolan, Christopher J.; Lesage, Sylvie; Schlenner, Susan M.; Liston, Adrian
https://www.ncbi.nlm.nih.gov/pubmed/26998692

2015

Exploring the role of MKK7 in excitotoxicity and cerebral ischemia: A novel pharmacological strategy against brain injury
CELL DEATH & DISEASE
Vercelli, Alessandr; Biggi, Silvia; Sclip, Alessandra; Repetto, I. E.; Cimini, S.; Falleroni, F.; Tomasi, S.; Monti, R.; Tonna, N.; Morelli, F.; Grande, V.; Stravalaci, M.; Biasini, Emiliano; Marin, O.; Bianco, Fabio; Di Marino, Daniele; Borsello, Tiziana
https://www.ncbi.nlm.nih.gov/pubmed/26270349

MD and Docking Studies Reveal That the Functional Switch of CYFIP1 is Mediated by a Butterfly-like Motion
JOURNAL OF CHEMICAL THEORY AND COMPUTATION
Di Marino, Daniele; Chillemi, Giovanni; De Rubeis, Silvia; Tramontano, Anna; Achsel, Tilmann; Bagni, Claudia
https://www.ncbi.nlm.nih.gov/pubmed/26575774

All-Atom Molecular Dynamics Simulation of Protein Translocation through an α-Hemolysin Nanopore
THE JOURNAL OF PHYSICAL CHEMISTRY LETTERS
Di Marino, Daniele; Bonome, Emma Letizia; Tramontano, Anna; Chinappi, Mauro
https://www.ncbi.nlm.nih.gov/pubmed/26267189

A unique binding mode of the eukaryotic translation initiation factor 4E for guiding the design of novel peptide inhibitors
PROTEIN SCIENCE
Di Marino, Daniele*; D’Annessa, Ilda; Tancredi, Holly; Bagni, Claudia; Gallicchio, Emilio*
https://www.ncbi.nlm.nih.gov/pubmed/26013047

Characterization of the differences in the cyclopiazonic acid binding mode to mammalian and P. Falciparum Ca2+ pumps: A computational study
PROTEINS
Di Marino, Daniele; D’Annessa, Ilda; Coletta, Andrea; Via, Allegra; Tramontano, Anna
https://www.ncbi.nlm.nih.gov/pubmed/25581715

2014

SAP97-mediated ADAM10 trafficking from Golgi outposts depends on PKC phosphorylation
CELL DEATH & DISEASE
Saraceno, Claudia; Marcello, Elena; Di Marino, Daniele; Borroni, Barbara; Claeysen, S.; Perroy, J.; Padovani, Alessandro; Tramontano, Anna; Gardoni, Fabrizio; Di Luca, Monica.
https://www.ncbi.nlm.nih.gov/pubmed/25429624

The crystal structure of Giardia duodenalis 14-3-3 in the apo form: When protein post-translational modifications make the difference
PLOS ONE
Fiorillo, Annarita; Di Marino, Daniele; Bertuccini, Lucia; Via, Allegra; Pozio, Edoardo; Camerini, Serena; Ilari, Andrea; Lalle, Marco
https://www.ncbi.nlm.nih.gov/pubmed/24658679

Molecular dynamics simulations show how the FMRP Ile304Asn mutation destabilizes the KH2 domain structure and affects its function
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
Di Marino, Daniele; Achsel, Tilmann; Lacoux, Caroline; Falconi, Mattia; Bagni, Claudia
https://www.ncbi.nlm.nih.gov/pubmed/23527791

2013

CYFIP1 coordinates mRNA translation and cytoskeleton remodeling to ensure proper dendritic Spine formation
NEURON
De Rubeis, Silvia; Pasciuto, Emanuela; Li, Kawan; Fernández, Esperanza; Di Marino, Daniele; Buzzi, Andrea; Ostroff, Linnaeae.; Klann, Eric; Zwartkruis, Fried J. T.; Komiyama, Noboruh.; Grant, Seth G. N.; Poujol, Christel; Choquet, Daniel; Achsel, Tilmann; Posthuma, Danielle; Smit, Augustb.; Bagni, Claudia
https://www.ncbi.nlm.nih.gov/pubmed/24050404

Endocytosis of synaptic ADAM10 in neuronal plasticity and Alzheimer’s disease
THE JOURNAL OF CLINICAL INVESTIGATION
Marcello, Elena; Saraceno, Claudia; Musardo, Stefano; Vara, Hugo; De La Fuente, Alerie Guzman; Pelucchi, Silvia; Di Marino, Daniele; Borroni, Barbara; Tramontano, Anna; Pérez-Otaño, Isabel; Padovani, Alessandro; Giustetto, Maurizio; Gardoni, Fabrizio; Di Luca, Monica
https://www.ncbi.nlm.nih.gov/pubmed/23676497

2012

BC1-FMRP interaction is modulated by 2′-O-methylation: RNA-binding activity of the tudor domain and translational regulation at synapses
NUCLEIC ACIDS RESEARCH
Lacoux, Caroline; Di Marino, Daniele; Boyl, Pietro Pilo; Zalfa, Francesca; Yan, Bing; Ciotti, Maria Teresa; Falconi, Mattia; Urlaub, Henning; Achsel, Tilmann; Mougin, Annie; Caizergues-Ferrer, Michèle; Bagni, Claudia
https://www.ncbi.nlm.nih.gov/pubmed/22238374

Mapping multiple potential ATP binding sites on the matrix side of the bovine ADP/ATP carrier by the combined use of MD simulation and docking
JOURNAL OF MOLECULAR MODELING
Di Marino, Daniele; Oteri, Francesco; Morozzo Della Rocca, Blasco; D’Annessa, Ilda; Falconi, Mattia
https://www.ncbi.nlm.nih.gov/pubmed/21989959

Molecular and cellular aspects of mental retardation in the Fragile X syndrome: From gene mutation/s to spine dysmorphogenesis
ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY
De Rubeis, Silvia; Fernández, Esperanza; Buzzi, Andrea; Di Marino, Daniele; Bagni, Claudia
https://www.ncbi.nlm.nih.gov/pubmed/22351071

2011

JNK3 as a therapeutic target for neurodegenerative diseases
JOURNAL OF ALZHEIMER’S DISEASE
Antoniou, Xanthi; Falconi, Mattia; Di Marino, Daniele; Borsello, Tiziana
https://www.ncbi.nlm.nih.gov/pubmed/21321401

2010

ADP/ATP mitochondrial carrier MD simulations to shed light on the structural-dynamical events that, after an additional mutation, restore the function in a pathological single mutant
JOURNAL OF STRUCTURAL BIOLOGY
Di Marino, Daniele; Oteri, Francesco; Morozzo della Rocca, Blasco; Chillemi, Giovanni; Falconi, Mattia
https://www.ncbi.nlm.nih.gov/pubmed/20688168

Docking simulation and competitive experiments validate the interaction between the 2, 5-xylidine inhibitor and rigidoporus lignosus laccase
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
Cambria, Maria Teresa*; Di Marino, Daniele*; Falconi, Mattia; Garavaglia, Silvia; Cambria, Antonio
https://www.ncbi.nlm.nih.gov/pubmed/19916571

2008

The Fragile X Syndrome Protein Represses Activity-Dependent Translation through CYFIP1, a New 4E-BP
CELL
Napoli, Ilaria; Mercaldo, Valentina; Boyl, Pietro Pilo; Eleuteri, Boris; Zalfa, Francesca; De Rubeis, Silvia; Di Marino, Daniele; Mohr, Evita; Massimi, Marzia; Falconi, Mattia; Witke, Walter; Costa-Mattioli, Mauro; Sonenberg, Nahum; Achsel, Tilmann; Bagni, Claudia
https://www.ncbi.nlm.nih.gov/pubmed/18805096
*Second page cover immage

Screening of EDA1 gene in X-linked anhidrotic ectodermal dysplasia using DHPLC: Identification of 14 novel mutations in Italian patients
GENETIC TESTING
Conte, Chiara; Gambardella, Stefano; Bulli, Cristina; Rinaldi, Fabrizio; Di Marino, Daniele; Falconi, Mattia; Bramanti, Placido; Desideri, Alessandro; Novelli, Giuseppe
https://www.ncbi.nlm.nih.gov/pubmed/18666859

2006

Structural dynamics of the mitochondrial ADP/ATP carrier revealed by molecular dynamics simulation studies
PROTEINS
Falconi, Mattia; Chillemi, Giovamnni; Di Marino, Daniele; D’Annessa, Ilda; Morozzo Della Rocca, Blasco; Palmieri, Luigi; Desideri, Alessandro
https://www.ncbi.nlm.nih.gov/pubmed/16988954