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. 2008 May;19(5):1942–1951. doi: 10.1091/mbc.E08-02-0110

Table 1.

Proteins bound to LIPM-II- and PI-3P-containing liposomes

Identified proteins NCBI gene identifier Predicted Mr (Da) Total MS/MS score No. of sequenced peptides Sequence coverage (%)
Coat components
    AP-3 d1 81882150 135,081 655 11 11
    AP-3 b1 18203657 122,798 548 10 11
    AP-3 b2 61219108 119,118 2009 33 42
    AP-3 m1 20531985 46,906 501 8 32
    AP-3 m2 66774020 46,886 654 10 43
    AP-3 s1 33112223 21,718 241 4 23
    AP-3 s2 33112221 22,003 185 4 23
    BIG1 82795382 184,075 526 10 7
    AGAP1 51338821 45,260 331 7 19
    ARAP1 68299130 162,234 134 3 2
CDC42 effectors and septin proteins
    BORG4 21362404 37,846 600 8 37
    Neuronal-specific septin 3 13124538 52,792 186 3 8
    Septin-4 114978 54,901 298 5 12
    Septin-5 83305642 42,721 264 5 16
    Septin-6 20178348 49,457 59 1a 5
    Septin-7 9789726 50,518 280 5 14
    Septin-8 45477305 49,781 249 5b 19
    Septin-11 50401563 49,532 208 4b 14
    Rho-GTPase-activating protein 1 (p50RhoGAP) 3024550c 50,404 191 4 12
Rabs and effectors
    Rab5C 38258917 23,398 722 10 62
    Rab7 46397834 23,475 677 11 63
    Rab3C 51338605 25,856 484 7 39
    TBC1 domain family member 10 20454885 56,167 309 6 11
    EEA1 76363511 160,915 1491 26 22
    Rabaptin-5 47605961 99,490 574 10 14
    Rabex-5 56405101 56,833 278 4 10
    Vacuolar protein sorting-associated protein 45 23396903 65,012 568 10 20
    Huntingtin 1708161 344,471 322 5 2
Kinases and effectors
    CDC42 binding protein kinase alpha 81174934d 196,940 293 6 4
    Protein kinase C, β type 55977813 76,844 275 6 10
    PICK1 22095978 46,517 489 8 21
    14-3-3 ζ/δ (protein kinase C inhibitor protein 1) 52000885 27,754 337 6 30
    A kinase anchor protein 10 71153491 73,586 559 9 20
Others
    Vacuolar ATP synthase catalytic subunit A 1718086 68,225 172 4 7
    Vacuolar ATP synthase catalytic subunit E 1718091 26,571 120 2 8
    GRASP-1 76363168 92,715 412 6 8
    Syntaxin binding protein 1 48429206 67,526 235 4 6
    Vesicular-fusion protein NSF 1171774 82,513 778 13 19

LIMP-II and PI-3P–containing liposomes were incubated with a mouse brain cytosol and GTPγS, and then they were purified on flotation gradient and analyzed by mass spectrometry as indicated in Materials and Methods.

a More sequenced peptides match to SEPT3/6/8/11.

b More sequenced peptides match to SEPT6/8/11.

c Human protein; no SwissProt entry available for an according mouse protein. All sequenced peptides also match with the mouse protein gi 13879250.

d Rat protein; no SwissProt entry available for an according mouse protein. All sequenced peptides also match with the mouse protein gi 94364571.