Table I Eight representative substrate kinase motifs matched to phosphopeptides identified in this study

A summary of eight representative substrate kinase motifs predicted to be matched to the identified phosphopeptides is shown. A total of 29 identified phosphopeptides matched the consensus substrate motifs of these eight kinases. The name of each kinase and the name of the identified phosphoproteins (Kinase and phosphoprotein), the experimentally identified phosphopeptide sequence (Phosphopeptide sequence), function of the phosphoproteins (Function), peptide fragmentation methods (MS/MS), and the references of previously reported phosphorylation sites (Refs.) are listed. A more comprehensive overview is provided in supplemental Table S4 with 29 consensus matches. EGFR, EGF receptor. FYVE, Fablp, YoTB, Vaclp, and EEA domain-containing proteins. Lowercase letters in sequences indicate modified residues.

Kinase and phosphoproteinPhosphopeptide sequenceFunctionMS/MSRefs.
Pyruvate dehydrogenase kinase
    Pyruvate dehydrogenase E1-αYHGHsMSDPGVSYRTCA cycleETD16, 40
    Ubiquinol-cytochrome c reductase core protein 1RLsRTDLTDYLNRETC complex IIIETD
    Netrin receptor UNC5BICsSLDAPNSRGNDWRApoptosisETD
    Ras-related protein Rab-3BMAsVtDGKTGIKTransportETD
    Zinc finger protein 811EILRNVVsIGDIRKTranscriptionETD
    Microtubule-associated protein 6AsGADERDTRRBindingETD
    Hypothetical ATP/GTP-binding site motif A (P-loop)-containing proteinRQGsDVDVLKBindingETD
Src kinase
    Pyruvate dehydrogenase E1-αKGGCAKGKGGSMHMyGKTCA cycleETD
    Pantothenate kinase 1LVKDIyGGDyERBiosynthesisETD
    Cytosol aminopeptidasemtKGLVLGIyAKDKProteolysisETD
    Arginase-2, mitochondrialNyDIQYFSMRUrea cycleETD
    Methylmalonyl-CoA mutaseGyDSDNPRVRGDVGTCA cycleCID
    Zymogen granule membrane protein 16TSSYSGEyGGKGGKROtherETD
Src family kinase
    Retinaldehyde-binding protein 1LQyPELFDsLSMEALRTransportETD
    Transmembrane channel-like protein 2LTVSDmLVTyLTILVGDFLOtherCID
Branched-chain α-ketoacid dehydrogenase
    2-Oxoisovalerate dehydrogenase subunit α, mitochondrialIGHHSTSDDSSAYRsVDEVNYWDKQDHPISRMetabolismETD16, 40, 45, 46
GSK3, ERK1, ERK2, CDK5
    Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complexEGPGAPCGsPRTCA cycleETD
    Apolipoprotein B100 receptorAEGSItPmETEGLLRMetabolism, transportETD
    40 S ribosomal protein S20RLIDLHsPSEIVKRNA bindingETD
    Junctophilin-2GLGTGLPERPREsPQLHERProtein bindingETD
    FYVE and coiled coil domain-containing protein 1AEKGEKtPPDTELHQEPVPADLVLKTransportETD46
    Bcl-2-like 13 proteinAEKTsPTPSVFVELGEEELEAVTARPEAVERApoptosisETD16
    Disks large-associated protein 5ELGNIHETSQDLsPEKSignalingETD47, 48
    Coiled coil-helix-coiled coil-helix domain-containing protein 2RAPAAQPPAAAAPSAVGsPAAAPRBiosynthesisETD16
PKCϵ kinase
    Zinc finger, CCHC domain-containing 5EPREPsAIsELRBindingETD
    Cardiac phospholambanRAsTIEMPQQARTransportCID13, 49
EGFR kinase
    Pantothenate kinase 1LVKDIyGGDyERBiosynthesisETD
    Zymogen granule membrane protein 16TSSYSGEyGGKGGKRExocytosisETD
GSK3 kinase
    Regulating synaptic membrane exocytosis protein 2sMQRsQSRExocytosisETD