The proteome of the apicoplast
Boucher MJ, Ghosh S, Zhang L, Lal A, Jang SW, Ju A, Zhang S, Wang X, Ralph SA, Zou J, Elias JE, Yeh E. Integrative proteomics and bioinformatic prediction enable a high-confidence apicoplast proteome in malaria parasites. PLoS Biol. 2018 Sep 13;16(9):e2005895. PMID:
Comparison was made with list of nuclear genes with apicoplast signal sequences taken from PlasmoDB
Functional class Reference Annotation Pf Essentiality Present in gene list Transcript EC#
DNA metabolism PF3D7_0103600
ATP-dependent DNA/RNA helicase psh1 Mutable in CDS NO
3.6.4.13
PF3D7_1223300
DNA gyrase subunit A Non - Mutable in CDS YES
5.99.1.3
PF3D7_1239500
DNA gyrase subunit B Non - Mutable in CDS YES
5.99.1.3
PF3D7_1313400 DEAD box helicase, putative Mutable in CDS YES
3.6.1.3
PF3D7_1405400 DNA mismatch repair protein, putative Mutable in CDS NO
PF3D7_0204600 5'-3' exonuclease, putative Mutable in CDS NO
3.1.11.-
PF3D7_1106300 5'-3' exoribonuclease 1, putative Non - Mutable in CDS YES
3.1.4.1
PF3D7_0508800
single-stranded DNA-binding protein Non - Mutable in CDS YES
PF3D7_1304100
DNA ligase I Non - Mutable in CDS YES
6.5.1.1
PF3D7_1411400
plastid replication-repair enzyme Non - Mutable in CDS YES
2.7.7.7
PF3D7_0112000 TatD-like deoxyribonuclease Non - Mutable in CDS YES
3.1.21.-
PF3D7_0504400
ATP-dependent helicase, putative Non - Mutable in CDS YES
3.6.1.3
PF3D7_1307600
DNA-directed RNA polymerase subunit alpha, putative Non - Mutable in CDS YES
2.7.7.6
PF3D7_0203900
5'-3' exonuclease, putative Non - Mutable in CDS YES
3.1.16.1
PF3D7_1472700 DNA-directed RNA polymerase, alpha subunit, putative Non - Mutable in CDS YES
2.7.7.6
PF3D7_1332600
DNA-(apurinic or apyrimidinic site) lyase 1 Mutable in CDS YES
4.2.99.18
RNA metabolism PF3D7_0319200
ccr4 domain-containing protein 4, putative Mutable in CDS YES
PF3D7_0408900
tRNA N6-adenosine threonylcarbamoyltransferase Non - Mutable in CDS YES
2.6.99.4
PF3D7_0707800 RAP protein, putative Non - Mutable in CDS NO
PF3D7_0727500 mterf domain-containing protein, putative Non - Mutable in CDS NO
PF3D7_1244000 glucose inhibited division protein a homologue, putative Non - Mutable in CDS YES
PF3D7_1244400 RNA-binding protein, putative Non - Mutable in CDS NO
PF3D7_0914300 met-10+ like protein, putative Mutable in CDS YES
2.1.1.-
PF3D7_1018000 tRNA pseudouridine synthase, putative Mutable in CDS YES
5.4.99.12
PF3D7_1221700 FbpA domain protein, putative Non - Mutable in CDS NO
PF3D7_0405400 pre-mRNA-processing-splicing factor 8, putative Non - Mutable in CDS NO
PF3D7_0627700 transportin Non - Mutable in CDS NO
PF3D7_0723700 metallo-hydrolase/oxidoreductase, putative Non - Mutable in CDS NO
3.1.26.11
PF3D7_0516300 tRNA pseudouridine synthase, putative Mutable in CDS NO
4.2.1.70
PF3D7_1350700 N6-adenine-specific methylase, putative Non - Mutable in CDS YES
2.1.1.62
PF3D7_0518100
protein amr2 Mutable in CDS NO
PF3D7_0811900 RNA-binding protein, putative Non - Mutable in CDS NO
PF3D7_1120500 tRNA nucleotidyltransferase, putative Non - Mutable in CDS YES
2.7.7.72
PF3D7_0504200 ATP-dependent RNA helicase ddx27, putative Non - Mutable in CDS YES
3.6.4.13
PF3D7_0218300 rRNA methyltransferase, putative Mutable in CDS YES
2.1.1.-
PF3D7_0219500
pseudouridine synthase, putative Mutable in CDS YES
4.2.1.70
PF3D7_1242200
queuine tRNA-ribosyltransferase, putative Non - Mutable in CDS YES
2.4.2.29
PF3D7_0817100 tRNA modification GTPase, putative Non - Mutable in CDS NO
PF3D7_1236700 S-adenosyl-methyltransferase, putative Non - Mutable in CDS YES
2.1.1.12
PF3D7_0918800 dihydrouridine synthase, putative Mutable in CDS YES
1.3.1.42
PF3D7_1207500 RNA-binding protein, putative Non - Mutable in CDS NO
PF3D7_0407200 peptidyl-tRNA hydrolase 2, putative Non - Mutable in CDS YES
3.1.1.29
PF3D7_0914000 pseudouridylate synthase, putative Mutable in CDS YES
4.2.1.70
PF3D7_1133800
RNA (uracil-5-)methyltransferase, putative Non - Mutable in CDS NO
2.1.1.35
PF3D7_0920200 CS domain protein, putative Non - Mutable in CDS NO
Translation PF3D7_0208600
ribosome-recycling factor Non - Mutable in CDS YES
PF3D7_0410700 ribosome biogenesis GTPase A, putative Non - Mutable in CDS YES
3.6.5.1
PF3D7_0414700 GTP-binding protein, putative Mutable in CDS YES
PF3D7_0509600
asparagine--tRNA ligase Non - Mutable in CDS YES
6.1.1.22
PF3D7_0514300 aspartate--tRNA ligase, putative Non - Mutable in CDS YES
6.1.1.12
PF3D7_0602400
elongation factor G Non - Mutable in CDS YES
PF3D7_0827500 ribosomal protein l21, apicoplast, putative Non - Mutable in CDS YES
PF3D7_0828200 leucine--tRNA ligase, putative Non - Mutable in CDS YES
6.1.1.4
PF3D7_0911700 GTP-binding protein, putative Mutable in CDS YES
PF3D7_0913900
arginine--tRNA ligase, putative Non - Mutable in CDS YES
6.1.1.19
PF3D7_0934000 histidine--tRNA ligase, putative Mutable in CDS YES
6.1.1.21
PF3D7_0311200 valine--tRNA ligase, putative Non - Mutable in CDS YES
6.1.1.9
PF3D7_1032000 ribosome maturation factor RimM, putative Non - Mutable in CDS NO
PF3D7_1217300
GTP-binding protein ENGA Non - Mutable in CDS YES
PF3D7_1225100
isoleucine--tRNA ligase, putative Mutable in CDS YES
6.1.1.5
PF3D7_1232000
phenylalanine--tRNA ligase Non - Mutable in CDS YES
6.1.1.20
PF3D7_1413400 30S ribosomal protein S9, putative Non - Mutable in CDS YES
PF3D7_0305000
elongation factor Ts Non - Mutable in CDS YES
PF3D7_0516600
translation initiation factor IF-2 sporozoite surface antigen MB2 Non - Mutable in CDS YES
PF3D7_0524600 50S ribosomal protein L12, apicoplast, putative Non - Mutable in CDS YES
PF3D7_0704900 peptide chain release factor 2 Non - Mutable in CDS YES
3.1.1.29
PF3D7_1411600
GTP-binding protein protein obg1 Non - Mutable in CDS YES
PF3D7_1428600
peptide chain release factor 1 Non - Mutable in CDS YES 3.1.1.29
PF3D7_1429100 ribosomal protein l15, apicoplast, putative Non - Mutable in CDS YES
PF3D7_1416800
lysine--tRNA ligase, putative Non - Mutable in CDS YES
6.1.1.6
PF3D7_0907900
peptide deformylase Non - Mutable in CDS YES
3.5.1.88
PF3D7_1005000
methionine--tRNA ligase, putative Non - Mutable in CDS YES
6.1.1.10
PF3D7_1313200
methionyl-tRNA formyltransferase, putative Mutable in CDS YES
2.1.2.9
PF3D7_0925300
proline--tRNA ligase, putative Non - Mutable in CDS YES
6.1.1.15
PF3D7_1367700
alanine--tRNA ligase Non - Mutable in CDS YES
6.1.1.7
PF3D7_0918200 50S ribosomal protein L3, apicoplast, putative Non - Mutable in CDS YES
PF3D7_1420400
glycine--tRNA ligase Non - Mutable in CDS YES
6.1.1.14
PF3D7_1117500
tyrosine--tRNA ligase Non - Mutable in CDS YES
6.1.1.1
PF3D7_1216000 serine--tRNA ligase, putative Non - Mutable in CDS YES
6.1.1.11
PF3D7_1126000
threonine--tRNA ligase Non - Mutable in CDS YES
6.1.1.3
PF3D7_1251700
tryptophanyl-tRNA synthetase, putative tryptophan--tRNA ligase, putative Non - Mutable in CDS YES 6.1.1.2
PF3D7_1015200
cysteine--tRNA ligase, putative Non - Mutable in CDS YES
6.1.1.16
PF3D7_1460900 ribosomal protein S10, apicoplast, putative Non - Mutable in CDS YES
PF3D7_1460900 ribosomal protein S10, apicoplast, putative Non - Mutable in CDS YES
PF3D7_1106100 ribosomal protein s15, apicoplast, putative Non - Mutable in CDS YES
PF3D7_0932600 apicoplast ribosomal protein S6, putative Mutable in CDS YES
PF3D7_1003200 ribosome-binding factor A, putative Non - Mutable in CDS NO
PF3D7_1249900 ribosomal RNA small subunit methyltransferase a2, putative Non - Mutable in CDS YES
PF3D7_0409700 peptide chain release factor 2, putative Non - Mutable in CDS NO
3.1.1.29
PF3D7_1208000 ribosomal protein L29, apicoplast, putative Non - Mutable in CDS YES
PF3D7_1034200 ribosomal protein l27, putative Non - Mutable in CDS YES
PF3D7_0810100 ribosomal protein l33, apicoplast, putative Non - Mutable in CDS NO
PF3D7_0310000 50S ribosomal protein L9, apicoplast, putative Non - Mutable in CDS NO
PF3D7_0522500 50S ribosomal protein L17, apicoplast, putative Non - Mutable in CDS YES
PF3D7_0413800 50S ribosomal protein L10, putative Non - Mutable in CDS YES
PF3D7_1210000 50S ribosomal protein L1, apicoplast, putative Non - Mutable in CDS YES
PF3D7_0907800 ribosomal protein L35, apicoplast, putative Non - Mutable in CDS YES
PF3D7_0613400 50s ribosomal protein l18, apicoplast, putative Non - Mutable in CDS YES
PF3D7_1467400
50S ribosomal protein L22, apicoplast, putative Non - Mutable in CDS YES
PF3D7_1137500
ribosomal protein s14, apicoplast, putative Non - Mutable in CDS YES
PF3D7_1357200
glutamate--tRNA ligase Non - Mutable in CDS YES
6.1.1.17
PF3D7_1469000
translation initiation factor IF-1 Non - Mutable in CDS YES
PF3D7_1034600
translation initiation factor IF-3, putative Non - Mutable in CDS NO
PF3D7_0711000
AAA family ATPase, CDC48 subfamily Non - Mutable in CDS YES
3.6.4.6
PF3D7_1144700
apicoplast import protein Tic20, putative Non - Mutable in CDS NO
PF3D7_1234600 protein TOC75, putative Non - Mutable in CDS NO
Post-translational modifications PF3D7_1358300
rhomboid protease ROM7 Mutable in CDS NO
3.4.21.105
PF3D7_1406400
pentatricopeptide repeat domain-containing protein 1 Non - Mutable in CDS NO
PF3D7_0812220
GTP-binding protein YihA3 Non - Mutable in CDS NO
PF3D7_0815700
apicoplast ubiquitin-like protein aubl Non - Mutable in CDS YES
PF3D7_0816600
chaperone protein ClpB1 Non - Mutable in CDS YES
PF3D7_1440200
stromal-processing peptidase, putative Non - Mutable in CDS YES
3.4.24.56
PF3D7_1308800 tyrosine recombinase Non - Mutable in CDS NO
PF3D7_1232100
60 kDa chaperonin Non - Mutable in CDS YES
PF3D7_1446200
M17 leucyl aminopeptidase Non - Mutable in CDS YES
3.4.11.1
PF3D7_1333000
20 kDa chaperonin Non - Mutable in CDS YES
PF3D7_1443900
heat shock protein 90, putative Non - Mutable in CDS YES
PF3D7_1333200
ubiquitin-activating enzyme Non - Mutable in CDS YES
6.2.1.45
PF3D7_1406600
ATP-dependent Clp protease regulatory subunit Clpc, putative Non - Mutable in CDS YES
3.4.21.92
PF3D7_1338900 serine/threonine protein kinase, putative Non - Mutable in CDS YES
2.7.11.1
PF3D7_0913500
apicoplast-minus ipp-rescued 4 Non - Mutable in CDS YES
PF3D7_0912400
alkaline phosphatase, putative Mutable in CDS NO
3.1.3.1
PF3D7_1009600 protein phosphatase ppm10, putative Non - Mutable in CDS NO
3.1.3.16
PF3D7_0507200
subtilisin-like protease 3 Mutable in CDS NO
3.4.21.62
PF3D7_0307400
ATP-dependent Clp protease proteolytic subunit Non - Mutable in CDS YES
3.4.21.92
PF3D7_1436800 ATP-dependent Clp protease proteolytic subunit Non - Mutable in CDS YES
3.4.21.92
PF3D7_0409400
chaperone protein dnaj; heat shock protein 40 Mutable in CDS NO
PF3D7_0529300
apicoplast TIC22 protein Non - Mutable in CDS NO
PF3D7_1452300
DER1-like protein Mutable in CDS NO
PF3D7_0314300 DER1-like protein Non - Mutable in CDS NO
PF3D7_1360800
falcilysin Non - Mutable in CDS NO
3.4.24.-
PF3D7_1345500
ubiquitin-conjugating enzyme E2 Non - Mutable in CDS YES
6.3.2.19
PF3D7_0316900
E3 ubiquitin-protein ligase, putative Mutable in CDS NO
6.3.2.19
PF3D7_0312100
E3 ubiquitin-protein ligase, putative Non - Mutable in CDS NO
6.3.2.19
PF3D7_1337200
1-deoxy-D-xylulose 5-phosphate synthase Non - Mutable in CDS YES
2.2.1.7
PF3D7_0916500 ubiquitin fusion degradation protein 1 Non - Mutable in CDS NO
PF3D7_1320100
ATP-dependent Clp protease adaptor protein ClpS, putative Non - Mutable in CDS YES
3.4.21.92
Amino acid metabolism PF3D7_0416100
glutamyl-tRNA(Gln) amidotransferase subunit A Non - Mutable in CDS YES
6.3.5.7
PF3D7_0628800
glutamyl-tRNA(Gln) amidotransferase subunit B, putative Non - Mutable in CDS NO
6.3.5.7
PF3D7_0804400
methionine aminopeptidase 1c, putative Non - Mutable in CDS YES
3.4.11.18
PF3D7_1430700
NADP-specific glutamate dehydrogenase Non - Mutable in CDS YES
1.4.1.4
Carbohydrate metabolism PF3D7_1364600
aldehyde reductase, putative Non - Mutable in CDS YES
1.1.1.21
PF3D7_1409100 aldo-keto reductase, putative Non - Mutable in CDS NO
1.1.1.21
PF3D7_1037100
pyruvate kinase 2, pyrkii Non - Mutable in CDS YES
2.7.1.40
PF3D7_1124500
pyruvate dehydrogenase E1 component subunit alpha Non - Mutable in CDS YES
1.2.4.1
PF3D7_0604700
glyoxalase I-like protein gilp Non - Mutable in CDS YES
PF3D7_1205700
targeted glyoxalase II Mutable in CDS NO
3.1.2.6
PF3D7_1446400
pyruvate dehydrogenase E1 component subunit beta Mutable in CDS YES
1.2.4.1
PF3D7_1114800
glycerol-3-phosphate dehydrogenase, putative Non - Mutable in CDS NO
1.1.1.8
Lipid metabolism PF3D7_0208500
acyl carrier protein Non - Mutable in CDS YES
PF3D7_0503100
4-diphosphocytidyl-2-C-methyl-D-erythritol kinase, putative Non - Mutable in CDS YES
2.7.1.148
PF3D7_0420200 holo-[acyl-carrier-protein] synthase, putative Non - Mutable in CDS YES
2.7.8.7
PF3D7_1207600 tRNA dimethylallyltransferase, putative Mutable in CDS YES
2.5.1.75
PF3D7_0209300
2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase Non - Mutable in CDS YES
4.6.1.12
PF3D7_1358000
patatin-like phospholipase, putative Mutable in CDS YES
3.1.1.4
PF3D7_1022800
4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (ferredoxin), putative Non - Mutable in CDS YES
1.17.7.1
PF3D7_0106900
2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, putative Non - Mutable in CDS NO
2.7.7.60
PF3D7_0316300 inorganic pyrophosphatase Mutable in CDS NO
3.6.1.1
PF3D7_0104400
4-hydroxy-3-methylbut-2-enyl diphosphate reductase Mutable in CDS YES
1.17.1.2
PF3D7_0919600
added_product=dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit wbp1, putative Non - Mutable in CDS YES 2.4.1.119
PF3D7_0622200 tRNA-2-methylthio-n(6)-dimethylallyladenosine synthase Mutable in CDS NO
2.1.1.-
PF3D7_0508200
longevity-assurance (LAG1) protein, putative Mutable in CDS NO
2.3.1.24
PF3D7_0311600 dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit ost1, putative Non - Mutable in CDS NO
2.4.99.18
PF3D7_1455900 polyprenol reductase Non - Mutable in CDS NO 1.3.1.94
PF3D7_0109850 phosphatidate cytidylyltransferase, putative ND NO
PF3D7_1119000 acyl-CoA-binding protein, putative Mutable in CDS NO
PF3D7_0615100
enoyl-acyl carrier reductase Non - Mutable in CDS YES
1.3.1.9
PF3D7_1469600
acetyl-coa carboxylase Mutable in CDS YES
6.3.4.14
PF3D7_0211400
beta-ketoacyl-ACP synthase III oxoacyl-ACP synthase FABH Mutable in CDS YES
2.3.1.180
PF3D7_1312000
malonyl CoA-acyl carrier protein transacylase precursor Non - Mutable in CDS YES
2.3.1.39
PF3D7_0626300
3-oxoacyl-acyl-carrier protein synthase I/II Mutable in CDS YES
2.3.1.41
PF3D7_0922900
3-oxoacyl-[acyl-carrier-protein] reductase Mutable in CDS YES
1.1.1.35
PF3D7_1323000
beta-hydroxyacyl-ACP dehydratase Non - Mutable in CDS YES
4.2.1.59
PF3D7_1318200
glycerol-3-phosphate 1-O-acyltransferase, putative Mutable in CDS YES
2.3.1.15
PF3D7_1467300
1-deoxy-D-xylulose 5-phosphate reductoisomerase Non - Mutable in CDS YES
1.1.1.267
PF3D7_0904700
bacterial histone-like protein Non - Mutable in CDS YES
Nucleaotide metabolism PF3D7_0111500
UMP-CMP kinase, putative Non - Mutable in CDS YES
2.7.4.14
PF3D7_1437200
ribonucleoside-diphosphate reductase large subunit, putative Non - Mutable in CDS NO
1.17.4.1
Cofactor biosynthesis PF3D7_0522700
iron-sulfur cluster assembly protein SUFA Non - Mutable in CDS NO
PF3D7_1413500
ABC transporter I family member 1 FeS assembly ATPase SufC Non - Mutable in CDS YES
PF3D7_0716600
cysteine desulfurase Non - Mutable in CDS YES
2.8.1.7
PF3D7_1103400
sulfur cluster assembly protein SufD Non - Mutable in CDS YES
PF3D7_0910800 cytosolic Fe-S cluster assembly factor NBP35, putative Non - Mutable in CDS YES
PF3D7_1443700
dephospho-CoA kinase Non - Mutable in CDS YES
2.7.1.24
PF3D7_0731600
acyl-CoA synthetase Mutable in CDS YES
6.2.1.3
PF3D7_1372400 acyl-CoA synthetase Mutable in CDS NO
6.2.1.3
PF3D7_0206100
cysteine desulfuration protein SufE Non - Mutable in CDS YES
2.8.1.7
PF3D7_1440300
delta-aminolevulinic acid dehydratase porphobilinogen synthase, HemB Non - Mutable in CDS YES
4.2.1.24
PF3D7_1209600
porphobilinogen deaminase Non - Mutable in CDS YES
2.5.1.61
PF3D7_0607300
uroporphyrinogen III decarboxylase Mutable in CDS YES
4.1.1.37
PF3D7_0921400
NifU-like scaffold protein Mutable in CDS YES
Redox metaboism PF3D7_1020800
dihydrolipoamide acyltransferase component E2 Non - Mutable in CDS YES
2.3.1.12
PF3D7_1419800
glutathione reductase Non - Mutable in CDS NO
1.8.1.7
PF3D7_0729200
1-cys peroxiredoxin Mutable in CDS YES
1.11.1.15
PF3D7_1419200 thioredoxin-like protein, putative Mutable in CDS NO
PF3D7_0529100 thioredoxin-like protein, putative Non - Mutable in CDS NO
PF3D7_0623500
superoxide dismutase [Fe] Non - Mutable in CDS YES 1.15.1.1
PF3D7_0815900
dihydrolipoyl dehydrogenase, apicoplast Mutable in CDS YES
1.1.1.35
PF3D7_1318100 ferredoxin, putative Non - Mutable in CDS YES
PF3D7_1212000
glutathione peroxidase-like thioredoxin peroxidase Non - Mutable in CDS YES
1.11.1.9
PF3D7_1419800
glutathione reductase Non - Mutable in CDS NO
1.8.1.7
PF3D7_1344600
lipoyl synthase Non - Mutable in CDS YES
2.8.1.8
PF3D7_0923600
lipoate-protein ligase 2 Non - Mutable in CDS NO
2.7.7.63
PF3D7_0823600
lipoate-protein ligase B, FTO Mutable in CDS NO
2.3.1.181
PF3D7_0623200
ferredoxin--NADP reductase Non - Mutable in CDS YES
1.18.1.2
Protein traffic PF3D7_1453300 yos1-like protein, putative Non - Mutable in CDS NO
PF3D7_0422100 transmembrane emp24 domain-containing protein, putative Non - Mutable in CDS NO
PF3D7_1329700
apicoplast calcium binding protein 1 Mutable in CDS YES
Exported proteins PF3D7_1212100 peripheral plastid protein 1, putative Non - Mutable in CDS NO
PF3D7_0108700 secreted ookinete protein, putative Mutable in CDS NO
PF3D7_0715400 secreted ookinete protein, putative Mutable in CDS NO
Transorters PF3D7_0813700 ABC transporter F family member 1, putative, ABCF1 Non - Mutable in CDS YES
PF3D7_0302600
ABC transporter B family member 4, putative, ABCB4 Mutable in CDS YES
PF3D7_1145500 ABC transporter B family member 3, putative. ABCB3 Mutable in CDS YES
PF3D7_1209900
ABC transporter B family member 7, putative, ABCB7 Mutable in CDS NO
PF3D7_0530200
phosphoenolpyruvate/phosphate translocator, PPT Mutable in CDS YES
PF3D7_0508300
triose phosphate transporter, TPT Non - Mutable in CDS YES
PF3D7_1135000 PQ-loop repeat-containing protein Mutable in CDS NO
PF3D7_1135000 PQ-loop repeat-containing protein Mutable in CDS NO
PF3D7_1340800 mitochondrial pyruvate carrier protein 1, putative, MPC1 Non - Mutable in CDS NO
PF3D7_0926400
monocarboxylate transporter, putative Mutable in CDS NO
Organellar functions PF3D7_1458100 protein PET117, putative Non - Mutable in CDS NO
+122 conserved Plasmodium proteins, unknown function
Online articles related to The proteome of the apicoplast retrieved from PubMed

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