Nuclear proteome
Oehring SC, Woodcroft BJ, Moes S, Wetzel J, Dietz O, Pulfer A, Dekiwadia C,Maeser P, Flueck C, Witmer K, Brancucci NM, Niederwieser I, Jenoe P, Ralph SA,Voss TS. Organellar proteomics reveals hundreds of novel nuclear proteins in the malaria parasite Plasmodium falciparum. Genome Biol. 2012 13(11):R108.
Briquet S, Ourimi A, Pionneau C, Bernardes J, Carbone A, Chardonnet S, Vaquero C. Identification of Plasmodium falciparum nuclear proteins by mass spectrometry and proposed protein annotation. PLoS One. 2018 Oct 31;13(10):e0205596.   PMID: 30379851
Columns F to H: prediction of classical nuclear localisation signals by NLStradamus, predictNLS and cNLS mapper, respectively
Functional group PfID Annotation Transcript EC#
NLStradadamus
PredictNLS
cNLS Mapper
 Appear also in Briquet at al Appear only in Briquet at al
37668 Replication and DNA metabolism PF3D7_1227600 kinetochore protein SPC24, putative no no no
37540 PF3D7_1023900
SNF2 helicase, putative chromodomain-helicase-DNA-binding protein 1 homolog, putative
3.6.4.12 yes yes yes √
37785 PF3D7_1362200
RuvB-like helicase 3
3.6.4.12 no no yes
37530 PF3D7_1017000
DNA polymerase delta catalytic subunit
2.7.7.7 no yes no
37580 PF3D7_1111100 replication factor C subunit 5, putative
no no no
37784 PF3D7_1361900
proliferating cell nuclear antigen 1
no no no √
37799 PF3D7_1408400 FANCJ-like helicase, putative
3.6.4.12 yes no no
37808 PF3D7_1415000
uracil-DNA glycosylase
3.2.2.27 no yes yes
37829 PF3D7_1433500
DNA topoisomerase 2
5.99.1.3 yes yes no √
37216 PF3D7_0218000
replication factor C subunit 2, putative
no no no
37218 PF3D7_0219600
replication factor c subunit 1
yes yes yes
37230 PF3D7_0305600
AP endonuclease (DNA-[apurinic or apyrimidinic site] lyase), putative
4.2.99.18 no no no √
37270 PF3D7_0408500 flap endonuclease 1
3.2.2.17 yes yes no √
37894 ?PF3D7_1477000 replication protein A1, large subunit
no no no
37299 PF3D7_0505500
DNA mismatch repair protein MSH6, putative
no no no
37306 PF3D7_0510500
topoisomerase I
5.99.1.2 yes yes yes
37311 PF3D7_0513600
deoxyribodipyrimidine photo-lyase, putative
4.1.99.3 yes yes no √
37332 PF3D7_0527000 DNA replication licensing factor MCM3, putative
1.3.3.6 yes yes yes √
37342 PF3D7_0605800
DNA repair protein RAD50, putative
yes yes yes
37454 PF3D7_0904800 replication protein A1, small fragment
no no no
37466 PF3D7_0910900 DNA primase large subunit, putative
2.7.7.6 no no no
37636 PF3D7_1203000
origin recognition complex subunit 1
yes yes no
37648 PF3D7_1211700 DNA replication licensing factor MCM5, putative
no no no
37655 PF3D7_1216900 DNA-binding chaperone, putative
yes yes no √
37666 PF3D7_1226600
proliferating cell nuclear antigen 2
no no no √
37687 PF3D7_1241700
replication factor C subunit 4, putative
no no no √
37846 PF3D7_1441400
FACT complex subunit SSRP1, putative
no no no √
37488 PF3D7_0926900 replication termination factor, putative
yes yes yes
37723 PF3D7_1317100 DNA replication licensing factor MCM4
√
37377 PF3D7_0705400 DNA replication licensing factor MCM7
√
37430 PF3D7_0814200
DNA/RNA-binding protein Alba 1
√
37758 PF3D7_1346300
DNA/RNA-binding protein Alba 2
√
37510 PF3D7_1006200
DNA/RNA-binding protein Alba 3
√
37760 PF3D7_1347500
DNA/RNA-binding protein Alba 4
√
37872 PF3D7_1463200
replication factor C subunit 3, putative
√
37367 PF3D7_0623900 ribonuclease H2 subunit A, putative
3.1.26.4 √
37468 PF3D7_0915200 ribonuclease H2 subunit C, putative
3.1.26.4 √
37304 PF3D7_0508800
single-stranded DNA-binding protein
√
37193 PF3D7_0112000 TatD-like deoxyribonuclease
3.1.21.- √
37436 Transcription and RNA metabolism PF3D7_0817900
high mobility group protein B2 yes yes no √
37524 PF3D7_1014600 transcriptional coactivator ADA2
yes yes yes
37568 PF3D7_1106000
RuvB-like helicase 2
3.6.4.12 no no no
37319 PF3D7_0517400 FACT complex subunit SPT16, putative yes yes yes √
37635 PF3D7_1202900
high mobility group protein B1
yes yes yes √
37713 PF3D7_1308900 mRNA-decapping enzyme 2, putative
yes yes no
37667 PF3D7_1227100
DNA helicase 60
3.6.4.12 no yes no √
37790 PF3D7_1368200
ABC transporter E family member 1, putative
no no no √
37402 PF3D7_0729400 ribosome biogenesis protein BRX1 homolog, putative
yes yes yes
37518 PF3D7_1008800
nucleolar protein 5, putative
yes no no
37547 PF3D7_1028300 rRNA-processing protein EBP2, putative
yes yes yes
37548 PF3D7_1028400
ribosome biogenesis protein rpf2, putative
no no no
37571 PF3D7_1107700 pescadillo homolog
yes yes yes
37588 PF3D7_1118500 nucleolar protein 56, putative
yes yes yes √
37631 PF3D7_1146000 ribosome assembly protein 4, putative
no no no
37716 PF3D7_1309500 H/ACA ribonucleoprotein complex subunit 1, putative
yes yes no
37777 PF3D7_1357700 U3 small nucleolar RNA-associated protein 21, putative
yes no no
37795 PF3D7_1407100
rRNA 2'-O-methyltransferase fibrillarin, putative
yes yes no
37520 PF3D7_1009400 zinc finger protein, putative
no no yes
37739 PF3D7_1332400
nucleotidyltransferase, putative
2.7.7.7 no yes yes
37237 PF3D7_0308600 pre-mRNA-processing factor 19, putative
no no yes
37551 PF3D7_1032100
mRNA-decapping enzyme subunit 1, putative
yes no no
37608 PF3D7_1129400 RNA (cytosine-C(5))-methyltransferase, putative
2.1.1.- yes yes no
37841 PF3D7_1438500
cleavage and polyadenylation specificity factor subunit 3, putative
yes no no
37891 PF3D7_1474900 trailer hitch homolog, putative
no no no
37464 PF3D7_0909400 exoribonuclease, putative
3.1.13.1 yes no no
37486 PF3D7_0925200 ribosomal RNA-processing protein 8, putative
2.1.1.- yes yes no
37495 PF3D7_0933000 cstf domain-containing protein, putative
yes yes yes
37679 PF3D7_1235500 mRNA methyltransferase, putative, METTL14
2.1.1.62 no no no
37682 PF3D7_1237600 periodic tryptophan protein 1, putative
yes yes yes
37783 PF3D7_1360900 RNA-binding protein, putative
no no no
37422 PF3D7_0811300 CCR4-associated factor 1
no no no
37442 PF3D7_0823200 RNA-binding protein, putative
no no no √
37426 PF3D7_0812500 RNA-binding protein, putative yes yes yes
37420 PF3D7_0810600 ATP-dependent RNA helicase dbp1, putative
3.6.4.13 no no no √
37509 PF3D7_1004400 RNA-binding protein, putative
yes no no
37511 PF3D7_1006800
G-strand-binding protein 2
no yes no √
37523 PF3D7_1011800 PRE-binding protein
yes yes yes √
37538 PF3D7_1022000 RNA-binding protein uis12, putative
no no no
37570 PF3D7_1107300 polyadenylate-binding protein-interacting protein 1, putative
yes no no √
37781 PF3D7_1359400
Cugbp Elav-like family member 1
no no no √
37782 PF3D7_1360100 RNA-binding protein, putative
no no no
37801 PF3D7_1409800 CUGBP Elav-like family member 2
no no no √
37809 PF3D7_1415300 RNA-binding protein Nova-1, putative
no no no
37850 PF3D7_1445200 ATP-dependent RNA helicase MAK5, putative
3.6.4.13 yes yes yes
37852 PF3D7_1445900
ATP-dependent RNA helicase ddx17
3.6.4.13 no no no
37866 PF3D7_1459000
ATP-dependent RNA helicase DBP5
3.6.4.13 no no no
37207 PF3D7_0208200 KRR1 small subunit processome component, putative
yes yes no
37208 PF3D7_0209800
ATP-dependent RNA helicase UAP56
3.6.4.13 no no no √
37257 PF3D7_0320800
ATP-dependent RNA helicase DDX6
3.6.4.13 no no no
37307 PF3D7_0511500 RNA pseudouridylate synthase, putative
5.4.99.12 yes yes not assessed
37312 PF3D7_0515000 pre-mRNA-splicing factor CWC2, putative
yes yes yes
37356 PF3D7_0615400 ribonuclease, putative
3.1.13.1 yes yes yes
37449 PF3D7_0903400 ATP-dependent RNA helicase ddx60, putative
3.6.4.13 yes no no √
37471 PF3D7_0917600
pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43, putative
3.6.4.13 no yes no
37485 PF3D7_0923900 polyadenylate-binding protein 2, putative
yes no no √
37489 PF3D7_0929200 RNA-binding protein, putative
no no no √
37678 PF3D7_1235300 CCR4-NOT transcription complex subunit 4, putative yes yes no
37708 PF3D7_1306900 U1 small nuclear ribonucleoprotein A, putative
yes no no
37439 PF3D7_0819900 U6 snRNA-associated Sm-like protein LSm3, putative no no no √
37410 PF3D7_0803000 peptidyl-prolyl cis-trans isomerase
5.2.1.8 yes yes no
37539 PF3D7_1022400
serine/arginine-rich splicing factor 4
yes yes yes
37590 PF3D7_1119300 splicing factor U2AF small subunit, putative
yes yes no
37591 PF3D7_1119800
alternative splicing factor ASF-1, putative
no no no
37594 PF3D7_1123900
13 kda ribonucleoprotein-associated protein, putative
no no no √
37595 PF3D7_1124400 U6 snRNA-associated Sm-like protein LSm1, putative
no no no
37598 PF3D7_1125500
small nuclear ribonucleoprotein Sm D1, putative
yes no yes
37601 PF3D7_1126900 small nuclear ribonucleoprotein F, putative no no no
37569 PF3D7_1107000 U6 snRNA-associated Sm-like protein LSm4, putative
yes yes no
37807 PF3D7_1414800 small nuclear ribonucleoprotein-associated protein B, putative
no no no √
37870 PF3D7_1461600 splicing factor 3B subunit 2, putative
yes yes no
37882 PF3D7_1468800 splicing factor U2AF large subunit, putative
yes yes yes
37243 PF3D7_0311100 pre-mRNA splicing factor, putative
yes no yes
37262 PF3D7_0323500 survival motor neuron-like protein
3.1.31.1 yes yes no
37267 PF3D7_0405400 pre-mRNA-processing-splicing factor 8, putative
yes yes yes
37295 PF3D7_0503300
serine/arginine-rich splicing factor 12
yes no no √
37318 PF3D7_0517300
serine/arginine-rich splicing factor 1
yes no no √
37325 PF3D7_0520300 U6 snRNA-associated Sm-like protein LSm2, putative no no no
37366 PF3D7_0623600 splicing factor-like protein, putative
no no no
37465 PF3D7_0909800
small nuclear ribonucleoprotein Sm D3, putative
no no no
37499 PF3D7_0935000 U2 small nuclear ribonucleoprotein B'', putative
no no no
37644 PF3D7_1209200 U6 snRNA-associated Sm-like protein LSm7, putative
no no no √
37677 PF3D7_1234800 splicing factor 3B subunit 3, putative
no no no
37409 PF3D7_0802100 ap2 domain transcription factor ap2-lt
yes yes no
37382 PF3D7_0708100 DNA-directed RNA polymerases I, II, and III subunit RPABC5, putative
2.7.7.6 no no no
37389 PF3D7_0714500 transcription elongation factor s-II, putative
no no no
37513 PF3D7_1007700
AP2 domain transcription transcription factor AP2-I
yes no yes √
37544 PF3D7_1027400 DNA-directed RNA polymerase II subunit RPB7, putative
2.7.7.6 no no no
37549 PF3D7_1030000 transcription elongation factor SPT4, putative
no no no
37554 PF3D7_1033600 pre-mRNA-splicing factor cef1, putative
yes no yes
37562 PF3D7_1103800 CCR4-NOT transcription complex subunit not1-g, putative
yes yes no
37572 PF3D7_1107800
AP2 domain transcription factor, putative
yes no yes √
37604 PF3D7_1128200
multiprotein bridging factor type 1, putative
no no no √
37622 PF3D7_1139300 ap2 domain transcription factor ap2-g5, putative
yes yes no
37632 PF3D7_1146600
ooocyst rupture protein 1, putative
yes yes yes
37705 PF3D7_1304900 DNA-directed RNA polymerase II subunit RPB11, putative
2.7.7.6 no no no
37786 PF3D7_1364800 DNA-directed RNA polymerases I, II, and III subunit RPABC1, putative