The five most intense ions were sequentially isolated for collision-induced dissociation MS/MS fragmentation and detection in the linear ion trap. Ions with single and unrecognized charge states were excluded. Raw data were analyzed with MaxQuant software (Version 1.0.12.31) in combination with MASCOT search engine for peptide and protein identifications (Version 2.2.04, Matrix Science).
International protein index Chicken (Version 3.47) was used as a Gallus gallus sequence database. MS/MS peak lists were filtered to contain at most six peaks per 100 Da interval and searched LBH589 nmr against MASCOT server. The MS mass tolerance was set to 7 ppm and MS/MS mass tolerance was set to 0.8 Da. Up to three missed cleavages of trypsin were allowed. Oxidized methionine and cysteine carbamidomethylation were searched as variable modifications. The modifications corresponding to arginine and lysine labeled with heavy stable isotopes was handled as fixed modifications in the MASCOT search, if applicable, after identification of SILAC pairs by MaxQuant. The false-positive rate was set to 1% at the
peptide level, the false discovery rate was set to 1% at the protein level and the minimum required peptide length was set to six amino acids. We thank Tomohiro Kurosaki for kindly providing antibodies to chicken SLP65, and Sandra Beer-Hammer for 14-3-3γ plasmids. We thank Uwe Plessmann and Monika Raabe for their Flavopiridol (Alvocidib) excellent technical assistance in MS analyses. T.O. was founded by the Institute of Mol. & Cell. Immunology and the Max Planck Institute for Biophysical Chemistry. This work was BVD-523 cell line supported by the Deutsche Forschungsgemeinschaft through FOR 521 and SFB 860, and the European Community’s Seventh Framework Program FP7/2007-2013 under grant agreement no 201549. (EURO-PADnet HEALTH-F2-2008-201549). H.B. and T.O. performed proteomic and functional analyses of Syk. M.E. conducted confocal laser scanning microscopy. H.H. contributed to interactome analyses. H.U. designed and supervised proteomic elucidation
of Syk and J.W. supervised the project and wrote the paper. Conflict of interest: The authors declare no financial or commercial conflict of interest. Detailed facts of importance to specialist readers are published as ”Supporting Information”. Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. “
“Citation Kaul R, Cohen CR, Chege D, Yi TJ, Tharao W, McKinnon LR, Remis R, Anzala O, Kimani J. Biological factors that may contribute to regional and racial disparities in HIV prevalence. Am J Reprod Immunol 2011; 65: 317–324 Despite tremendous regional and subregional disparities in HIV prevalence around the world, epidemiology consistently demonstrates that black communities have been disproportionately affected by the pandemic.