Research Article

Characterization of Silk Fibroin Modified Surface: A Proteomic View of Cellular Response Proteins Induced by Biomaterials

Table 3

The 17 proteins identified with higher confidence level (at least three unique peptide sequences matched) in this study. The P17, CD44, was only identified on the SF modified surface.

Protein numberSwiss-Prot/
TrEMBL
accession number
Protein nameMW (Da)ScoreMatch queriesPISequence coverageMatch peptide

P01Q2M3C7A-kinase anchor protein SPHKAP1863393435.048%R.EACAGEPEPFLSK.S + Carbamidomethyl (C); Phospho (ST)
R.QSSMPDSRSPCSR.L + Carbamidomethyl (C); 4 Phospho (ST); Oxidation (M)
R.SPVCHRQSSMPDSRSPCSR.L + Carbamidomethyl (C); Deamidated (NQ); 4 Phospho (ST); Oxidation (M)

P02P05067Amyloid beta A4 protein868881934.739%K.WDSDPSGTKTCIDTK.E + 5 Phospho (ST)
K.GAIIGLMVGGVVIATVIVITLVMLKK.K + Oxidation (M); Phospho (ST)
R.ALEVPTDGNAGLLAEPQIAMFCGR.L + 2 Deamidated (NQ); Oxidation (M); Phospho (ST)

P03Q9UKV3Apoptotic chromatin condensation inducer in the nucleus1517711936.082%R.EREMER.R
R.TSTSSSSVQAR.R + 7 Phospho (ST)
K.QSADSSSSRSSSSSSSSSR.S + Deamidated (NQ); 9 Phospho (ST)

P04Q9NR09Baculoviral IAP repeat-containing protein 65299193435.674%R.SRGTPSGTQSSR.E + Deamidated (NQ); 3 Phospho (ST)
R.TIPDKIGSTSGAEAANK.I + Deamidated (NQ)
R.GRTIPDKIGSTSGAEAANK.I + Phospho (ST)

P05P51685C-C chemokine receptor type 8408171838.664%R.ESCEKSSSCQQHSSR.S + Carbamidomethyl (C); Deamidated (NQ); 3 Phospho (ST)
R.ESCEKSSSCQQHSSR.S + Carbamidomethyl (C); 2 Deamidated (NQ); 5 Phospho (ST)
R.ESCEKSSSCQQHSSR.S + Carbamidomethyl (C); 2 Deamidated (NQ); 5 Phospho (ST)

P06Q9BV73Centrosome-associated protein CEP25028096719355%R.EPAQLLLLLAK.T
K.GQLEVQIQTVTQAK.E + 4 Deamidated (NQ); Phospho (ST)
K.AEHVRLSGSLLTCCLRLTVGAQSR.E
R.SLFKRGPLLTALSAEAVASALHK.L + 3 Phospho (ST)

P07O95067G2/mitotic-specific cyclin-B245253183912%R.KKLQLVGITALLLASK.Y
K.VPVQPTKTTNVNKQLKPTASVKPVQMEK.L + Deamidated (NQ); Oxidation (M); Phospho (ST)
K.AQNTKVPVQPTKTTNVNK.Q + 3 Deamidated (NQ); 2 Phospho (ST)

P08Q16478Glutamate receptor, ionotropic kainate 51091954248.547%K.VSTIIIDANASISHLILRK.A + Deamidated (NQ); 2 Phospho (ST)
R.LNCNLTQIGGLLDTK.G + 2 Deamidated (NQ); Phospho (ST)
R.YQTYQRMWNYMQSK.Q + 4 Deamidated (NQ); Oxidation (M); 2 Phospho (ST); 2 Phospho (Y)
R.LQYLRFASVSLYPSNEDVSLAVSRILK.S + 2 Deamidated (NQ)

P09Q63HM2Pecanex-like protein C14orf1351326163675.889%K.GDLIKVLVWILVQYCSK.R
K.GDLIKVLVWILVQYCSK.R + Deamidated (NQ)
K.HQLKDLPGTNLFIPGSVESQR.V
K.HQLKDLPGTNLFIPGSVESQR.V + Deamidated (NQ)
K.HQLKDLPGTNLFIPGSVESQR.V + 2 Deamidated (NQ)
R.LMWIMILECGYTYCSINIK.G + 2 Carbamidomethyl (C); Deamidated (NQ)
K.KYVANTVFHSILAGLACGLGTWYLLPNR.I + Carbamidomethyl (C)

P10O14497AT-rich interactive domain-containing protein 1A2418922786.246%K.SKKSSSSTTTNEK.I + Deamidated (NQ); 6 Phospho (ST)
K.HPGLLLILGKLILLHHK.H
R.NSMTPNPGYQPSMNTSDMMGR.M + 2 Deamidated (NQ); Oxidation (M); 2 Phospho (ST)
R.EMAVVLLANLAQGDSLAARAIAVQK.G + Deamidated (NQ); Oxidation (M)
R.ITATMDDMLSTRSSTLTEDGAK.S + 2 Oxidation (M); 4 Phospho (ST)
K.APGSDPFMSSGQGPNGGMGDPYSR.A + 4 Phospho (ST); Phospho (Y)
R.GYMQRNPQMPQYSSPQPGSALSPR.Q + Oxidation (M); Phospho (ST)
K.RNSMTPNPGYQPSMNTSDMMGR.M + Deamidated (NQ); Oxidation (M); 3 Phospho (ST); Phospho (Y)

P11P50224Sulfotransferase 1A3/1A4341742345.686%R.LIKSHLPLALLPQTLLDQK.V
R.LIKSHLPLALLPQTLLDQK.V + Deamidated (NQ)
R.LIKSHLPLALLPQTLLDQK.V + Deamidated (NQ)
R.LIKSHLPLALLPQTLLDQK.V + 2 Deamidated (NQ)

P12Q09666Neuroblast differentiation-associated protein AHNAK6286993935.82%K.VHAPGLNLSGVGGKMQVGGDGVK.V + Deamidated (NQ); Oxidation (M); Phospho (ST) R.AGAISASGPELQGAGHSKLQVTMPGIKVGGSGVNVNAK.G + 2 Deamidated (NQ); Oxidation (M); 4 Phospho (ST)
K.VKVPEVDVRGPK.V

P13Q63HM2Pecanex-like protein C14orf1351326163535.885%R.TSCMPSSKMK.E + Carbamidomethyl (C); 2 Oxidation (M); 2 Phospho (ST)
K.HQLKDLPGTNLFIPGSVESQR.V + Deamidated (NQ)
K.HQLKDLPGTNLFIPGSVESQR.V + 2 Deamidated (NQ)

P14O43182Rho GTPase-activating protein 610588232479%R.EQQVTQK.K
K.DPGMTGSSGDIFESSSLR.A + Phospho (ST)
-.MSAQSLLHSVFSCSSPASSSAASAK.G + Deamidated (NQ); Oxidation (M); 3 Phospho (ST)
R.EQQVTQKKLSSANSLPAGEQDSPR.L + 2 Phospho (ST)

P15O76074cGMP-specific 3′, 5′-cyclic phosphodiesterase999213955.7410%R.WILSVKKNYR.K + Phospho (ST)
K.KIAATIISFMQVQK.C + Oxidation (M); Phospho (ST)
K.ELNIEPTDLMNREKK.N + Deamidated (NQ)
K.TQSILCMPIKNHREEVVGVAQAINK.K + 4 Deamidated (NQ); 2 Phospho (ST)
R.GHTESCSCPLQQSPRADNSAPGTPTRK.I + 2 Deamidated (NQ); Phospho (ST)

P16O60299ProSAP-interacting protein 1717473557.569%K.SRTMTPAGGSGSGLSDSGR.N + Oxidation (M)
K.SRTMTPAGGSGSGLSDSGR.N + Oxidation (M); 4 Phospho (ST)
R.IGTASYGSGSGGSSGGGSGYQDLGTSDSGR.A + 4 Phospho (ST); Phospho (Y)
K.SRTMTPAGGSGSGLSDSGR.N + Oxidation (M); 4 Phospho (ST)
K.QLQLSYVEMYQRNQQLER.R + 3 Deamidated (NQ); Phospho (Y)

P17P16070CD44814877935.1316%R.YGFIEGHVVIPR.I
R.TPQIPEWLIILASLLALALILAVCIAVNSRRR.C
K.SQEMVHLVNKESSETPDQFMTADETRNLQNVDMK.I