title: Quantitative analysis of PPT1 interactome in human neuroblastoma cells.
abstract: Mutations in the CLN1 gene that encodes Palmitoyl protein thioesterase 1 (PPT1) or CLN1, cause Infantile NCL (INCL, MIM#256730). PPT1 removes long fatty acid chains such as palmitate from modified cysteine residues of proteins. The data shown here result from isolated protein complexes from PPT1-expressing SH-SY5Y stable cells that were subjected to single step affinity purification coupled to mass spectrometry (AP-MS). Prior to the MS analysis, we utilised a modified filter-aided sample preparation (FASP) protocol. Based on label free quantitative analysis of the data by SAINT, 23 PPT1 interacting partners (IP) were identified. A dense connectivity in PPT1 network was further revealed by functional coupling and extended network analyses, linking it to mitochondrial ATP synthesis coupled protein transport and thioester biosynthetic process. Moreover, the terms: inhibition of organismal death, movement disorders and concentration of lipid were predicted to be altered in the PPT1 network. Data presented here are related to Scifo et al. (J. Proteomics, 123 (2015) 42-53).
authors.affiliation: Meilahti Clinical Proteomics Core Facility, Institute of Biomedicine, Biochemistry and Developmental Biology, University of Helsinki, Helsinki, Finland ; Doctoral Program Brain & Mind, University of Helsinki, Helsinki, Finland.
authors.forename: Enzo
authors.initials: E
authors.lastname: Scifo
authors.affiliation: Institute for Molecular Medicine (FIMM), University of Helsinki, Helsinki, Finland.
authors.forename: Agnieszka
authors.initials: A
authors.lastname: Szwajda
authors.affiliation: Meilahti Clinical Proteomics Core Facility, Institute of Biomedicine, Biochemistry and Developmental Biology, University of Helsinki, Helsinki, Finland.
authors.forename: Rabah
authors.initials: R
authors.lastname: Soliymani
authors.affiliation: Department of Neurological and Movement Sciences, University of Verona, Verona, Italy.
authors.forename: Francesco
authors.initials: F
authors.lastname: Pezzini
authors.affiliation: Department of Neurological and Movement Sciences, University of Verona, Verona, Italy ; Unit for Neuromuscular and Neurodegenerative Disorders, Laboratory of Molecular Medicine, Bambino Gesù Children's Hospital, IRCCS, Rome, Italy.
authors.forename: Marzia
authors.initials: M
authors.lastname: Bianchi
authors.affiliation: Meilahti Clinical Proteomics Core Facility, Institute of Biomedicine, Biochemistry and Developmental Biology, University of Helsinki, Helsinki, Finland.
authors.forename: Arvydas
authors.initials: A
authors.lastname: Dapkunas
authors.affiliation: Mass Spectrometry Laboratory, Department of Biophysics, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland.
authors.forename: Janusz
authors.initials: J
authors.lastname: Dębski
authors.affiliation: Folkhälsan Institute of Genetics, Helsinki, Finland ; National Institute for Health and Welfare, Public Health Genomics Unit, Helsinki, Finland.
authors.forename: Kristiina
authors.initials: K
authors.lastname: Uusi-Rauva
authors.affiliation: Mass Spectrometry Laboratory, Department of Biophysics, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland.
authors.forename: Michał
authors.initials: M
authors.lastname: Dadlez
authors.affiliation: Centre for Systems Biology, Samuel Lunenfeld Research Institute at Mount Sinai Hospital, Toronto, and Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.
authors.forename: Anne-Claude
authors.initials: AC
authors.lastname: Gingras
authors.affiliation: Meilahti Clinical Proteomics Core Facility, Institute of Biomedicine, Biochemistry and Developmental Biology, University of Helsinki, Helsinki, Finland.
authors.forename: Jaana
authors.initials: J
authors.lastname: Tyynelä
authors.affiliation: Department of Neurological and Movement Sciences, University of Verona, Verona, Italy.
authors.forename: Alessandro
authors.initials: A
authors.lastname: Simonati
authors.affiliation: Institute for Molecular Medicine (FIMM), University of Helsinki, Helsinki, Finland ; National Institute for Health and Welfare, Public Health Genomics Unit, Helsinki, Finland.
authors.forename: Anu
authors.initials: A
authors.lastname: Jalanko
authors.affiliation: Meilahti Clinical Proteomics Core Facility, Institute of Biomedicine, Biochemistry and Developmental Biology, University of Helsinki, Helsinki, Finland.
authors.forename: Marc H
authors.initials: MH
authors.lastname: Baumann
authors.affiliation: Meilahti Clinical Proteomics Core Facility, Institute of Biomedicine, Biochemistry and Developmental Biology, University of Helsinki, Helsinki, Finland ; Folkhälsan Institute of Genetics, Helsinki, Finland.
authors.forename: Maciej
authors.initials: M
authors.lastname: Lalowski