Table 4. Prenylated proteins in Plasmodium falciparum, identified by C15AlkOPP labeling and proteomics, with –CaaX, -CXC, and –CC prenylation motifs.
| Protein Name | Accession Noa./Gene IDb | Mol. wt. (kDa)a | Biological Processc | Cellular Componentc | Spectral Count | FPP | Fold Change | Percent coverage (%) |
C-term sequencec | Confirmed prenylation | PrePSd | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| C15Alk-OPP | C15Alk-OPP | FPP | ||||||||||
| Rab6 | Q8IHR8PF3D7_1144900 | 24 | vesicular transport (putative) | trans Golgi, cytosolic29 | 33,32,33 | 0,0,0 | 33 | 70,70,59 | 0,0,0 | NMLSKCLC | Yes29 | GGT-2** |
| HSP40 subfamily A | Q8IL88PF3D7_1437900 | 48 | protein folding43, protein translocation (putative)54 | cytosolic, RBCmembrane43 | 39,34,37 | 1,2,0 | 28 | 41,35,33 | 2,5,0 | GRVACAQQ | No | FT** |
| Rab7 | C0H516PF3D7_0903200 | 24 | retrograde transport55 | endosomes55 | 25,27,25 | 0,0,0 | 26 | 59,66,66 | 0,0,0 | KMYKSRCC | No | GGT-2*** |
| Rab1b | Q7K6A8PF3D7_0512600 | 23 | ER to Golgi transport (putative)40 | ER, Golgi (putative)40 | 19,12,17 | 0,0,0 | 16 | 37,35,31 | 0,0,0 | PDTKKKCC | No | GGT-2*** |
| Rab1a | Q8I3W9PF3D7_0513800 | 24 | ER to Golgi transport40 | ER, Golgi40 | 11,10,12 | 0,0,0 | 11 | 17,21,22 | 0,0,0 | SPQSFCSC | No | GGT-2*** |
| Rab2 | Q8I5A9PF3D7_1231100 | 24 | ER to Golgi transport (putative)40 | ER, Golgi (putative)40 | 25,21,28 | 2,0,0 | 18 | 58,56,57 | 11,0,0 | SRSGFSCC | No | GGT-2*** |
| Rab5c | Q8I274PF3D7_0106800 | 24 | retrograde transport14 | endosomes14 | 18,15,14 | 0,0,0 | 16 | 43,35,33 | 0,0,0 | EETKKKCC | Yes14 | GGT-2*** |
| Rab11a | Q76NM4PF3D7_1320600 | 25 | formation of inner membranecomplex56, recycling endosome transport (putative) | vesicles56 | 12,17,12 | 0,0,0 | 14 | 41,42,41 | 0,0,0 | TKKKNKCC | No | GGT-2*** |
| Rab5a | O96193PF3D7_0211200 | 27 | retrograde transport14 | endosomes14 | 9,9,11 | 0,0,0 | 9.7 | 25,29,29 | 0,0,0 | TLSKKGCC | Yes14 | GGT-2*** |
| Rab18 | Q7K6B0PF3D7_0807300 | 23 | mobilization of lipid droplets (putative)57 | Parasitopho-rous vacuole mem brane (putative)57 | 9,7,11 | 1,1,1 | 9 | 28,24,28 | 6,6,6 | ESRSNCAC | No | GGT-2*** |
| Rab11b | C0H5G2PF3D7_1340700 | 24 | transport (putative) | membrane (putative) | 8,10,9 | 0,0,0 | 9 | 30,25,31 | 0,0,0 | NMNKVKCC | No | GGT-2** |
| SNARE Ykt6.2 | C0H5D3PF3D7_1324700 | 26 | vesicular fusion, transport (putative)58 | membrane (putative) | 5,6,7 | 0,0,0 | 6 | 14,18,24 | 0,0,0 | KNNQCCSLY | No | FT* |
| SNARE Ykt6.1 | Q8I346PF3D7_0910600 | 23 | vesicular fusion, transport (putative)58 | Golgi, cytosolic, vacuolar31 | 3,2,2 | 0,0,0 | 2.3 | 17,13,11 | 0,0,0 | LKQCCSIM | Yes58 | FT***GGT-1*** |
| Uncharac-terized | Q8IKN0PF3D7_1460100 | 38 | PI3P binding, trafficking to the food vacuole59 | food vacuole lumen59 | 0,2,1 | 0,0,0 | 1.3 | 0,8,5 | 0,0,0 | QRRMCNIM | No | FT*GGT-1** |
| Uncharac-terized | Q8ILH7PF3D7_1428700 | 51 | 0,1,3 | 0,0,0 | 1.7 | 0,3,5 | 0,0,0 | KRNKCNFM | No | — | ||
For each protein, fold-change indicates the ratio of the average total spectral counts obtained following C15AlkOPP- versus FPP-labeling, across three experimental replicates. An imputation of 1 was employed to calculate fold changes. Spectral counts and percent coverage for each replicate are shown. Two uncharacterized proteins (protein identifiers and associated data are italicized) containing predicted prenylation motifs were identified with low spectral counts. Underlined residues indicate putative sites for prenylation. aProtein accession numbers including theoretical molecular weights and bgene IDs were obtained from UniProt and PlasmoDB, respectively. CUnless otherwise referenced from previous reports, biological processes and cellular component of identified proteins were obtained from UniProt. dPrePS was used to predict the likelihood of prenylation of the proteins identified: *low, **intermediate, ***high.