TABLE 3.
Comparative proteome analysis with the phosphoproteome of C. reinhardtii
| Gene model (JGI, version 2)a | Function and/or homologies of depicted proteins to proteins of other organisms, their conserved domains, and their NCBI accession no.b |
|---|---|
| Flagella (24) | |
| C_20170 | gi|23128981|ref|ZP_00110817.1| COG2319: FOG: WD40 repeat (Nostoc punctiforme PCC 73102) |
| C_20337 (C)* | gi|1353876|gb|AAB01817.1| glutamine synthetase (Chlamydomonas reinhardtii); u.a., GS1, glutamine synthetase, cytosolic isozyme, CO2-responsive gene |
| C_50072 | gi|23128003|ref|ZP_00109860.1| COG2453: predicted protein, tyrosine phosphatase (N. punctiforme PCC73102); KOG: protein tyrosine phosphatase (CDC14) |
| C_50129 | gi|12620209|gb|AAG60619.1| adenylate cyclase (Cryptococcus neoformans var. grubii); gnl|CDD|37 smart00044, CYCc, Adenylyl/guanylyl cyclase, catalytic domain |
| C_60100 | gi|23479871|gb|EAA16587.1| R27-2 protein (Plasmodium yoelii yoelii); gnl|CDD|10914 COG1196, Smc, chromosome segregation ATPases |
| C_90101 | gi|21039486|gb|AAM33652.1| mastigoneme-like protein (C. reinhardtii); KOG: fibrillins and related proteins containing Ca2+-binding EGF-like domains |
| C_110095 | u.a., coiled-coil protein |
| C_150121 | gi|50906913|ref|XP_464945.1| putative PKG-lb (Oryza sativa japonica cultivar group); gnl|CDD|17776 cd00180, S_TKc, serine/threonine protein kinases, catalytic domain; gnl|CDD|16536 cd00143, PP2Cc, serine/threonine phosphatases, family 2C, catalytic domain; gnl|CDD|14778 cd00038, CAP_ED, effector domain of the CAP family of transcription factors |
| C_270111 | gi|62650163|ref|XP_575971.1| similar to hypothetical protein A530045M11 (Rattus norvegicus); u.a., FAP74, conserved uncharacterized flagellum-associated protein |
| C_290071 | gi|68353830|ref|XP_690098.1| similar to cold autoinflammatory syndrome 1 protein (cryopyrin) (NACHT-, LRR-, and PYD-containing protein 3) (PYRIN-containing APAF1-like protein 1) (Angiotensin/vasopressin receptor AII/AVP-like) (Danio rerio); c.d., leucine-rich repeats, ribonuclease inhibitor-like subfamily |
| C_360006 | gi|27529748|dbj|BAA76788.2| KIAA0944 protein (Homo sapiens); u.a., DHC6, dynein heavy chain 6 (putative flagellar inner-arm dynein heavy chain) |
| C_410060 | gi|57087161|ref|XP_536793.1| similar to hydrocephalus-inducing protein (Canis familiaris); u.a., similar to mouse hydrocephaly protein hydin HY3 |
| C_420012 | gi|29135339|ref|NP_619615.2| polycystic kidney and hepatic disease 1-like 1 (Mus musculus); gnl|CDD|27705 cd00603, IPT_PCSR, IPT domain of plexins and cell surface receptors (PCSR) and related proteins |
| C_550085 | No significant similarity found; u.a., FAP1 |
| C_570035 | gi|50057451|emb|CAH03435.1| hypothetical transmembrane protein (Paramecium tetraurelia); u.a., FAP113 |
| C_590094 | No significant similarity found |
| C_590099 | gi|68371158|ref|XP_695404.1| similar to SI:PACKTRZ.2 (novel protein similar to human polycystic kidney disease 2-like 1 [PKD2L1]), partial (Danio rerio); u.a., PKD2, weakly similar to polycystin-2; KOG: Ca2+-modulated nonselective cation channel polycystin |
| C_700061 | gi|67475672|ref|XP_653525.1| plasma membrane calcium-transporting ATPase, putative (Entamoeba histolytica HM-1:IMSS) |
| C_750005 (C)* | gi|10441431|gb|AAG17036.1|S-adenosylmethionine synthetase (Pinus contorta) |
| C_750038 | gi|71755035|ref|XP_828432.1| hypothetical protein Tb11.02.0990 (Trypanosoma brucei); u.a., FAP75, flagellum-associated P-loop-containing protein |
| C_760066 | No significant similarity found |
| C_850039 | No significant similarity found |
| C_870044 | No significant similarity found |
| C_910056 | gi|29827935|ref|NP_822569.1| putative ABC transporter solute-binding protein (Streptomyces avermitilis MA-4680) |
| C_970003 | gi|50750584|ref|XP_422048.1| similar to tubulin alpha-5 chain, chicken (Gallus gallus); u.a., FAP248 |
| C_1120028 (B)* | gi|16974385|gb|AAL31118.1| gene info AT5g19940/F28l16_90 (Arabidopsis thaliana); gnl|CDD|16052 pfam04755, PAP_fibrillin |
| C_1150005 | gi|7441384|pir||T08164 dynein α heavy chain (C. reinhardtii) (fragment); u.a., DHC1, flagellar inner-arm dynein 1 heavy chain α |
| C_1340006 | gi|18164|emb|CAA32061.1| OEE3 precursor protein (C. reinhardtii); u.a., oxygen-evolving enhancer protein 3 (PsbQ) |
| C_1460023 (C)* | gi|619932|gb|AAB61446.1| isocitrate lyase (C. reinhardtii) |
| C_1580045 | gi|130264|sp|P18068|PLAS_CHLRE plastocyanin, chloroplast precursor (PC6-2); c.d., gnl|CDD|15127 pfam00127, copper-binding proteins, plastocyanin/azurin family |
| C_1710010 | gi|2494209|sp|Q39575|DYHG_CHLRE dynein γ chain, flagellar outer arm; u.a., ODA2 flagellar outer dynein arm heavy chain γ (PF28); gnl|CDD|26007 pfam03028 dynein heavy chain |
| C_2350009 | u.a., FAP157, conserved uncharacterized flagellum-associated protein |
| Centriole (13) | |
| C_20130 | gi|62860034|ref|NP_001016608.1| hypothetical protein LOC549362 (Xenopus tropicalis); u.a., novel protein (WD repeat domain), described as protocilium-class FABP protein in human centrosome |
| C_200025 | c.d., coiled-coil protein |
| C_200196 | gi|70879596|gb|EAN92756.1| hypothetical protein, conserved (Trypanosoma cruzi); u.a., coiled-coil protein with homology to a putative transcript, CG15792-PC, isoform C (Drosophila melanogaster), a hypothetical protein CE2713 (Corynebacterium efficiens YS-314), and to ciliary rootlet coiled-coil rootletin NP_055490.2 (H. sapiens) |
| C_1120028 (A)* | gi|16974385|gb|AAL31118.1| AT5g19940/F28l16_90 (A. thaliana); gnl|CDD|16052 pfam04755, PAP_fibrillin, PAP_fibrillin |
| Thioredoxin-interacting partners (18) | |
| C_20337 (A)* | gi|1353876|gb|AAB01817.1| glutamine synthetase (C. reinhardtii); u.a., GS1, cytosolic glutamine synthetase, CO2-responsive gene |
| C_30202 | gi|515618|emb|CAA52439.1| sedoheptulose-bisphosphatase (C. reinhardtii) |
| C_120103 | gi|24030434|gb|AAN41372.1| dihydroxy-acid dehydratase (A. thaliana); CDD|25654 pfam00920, ILVD_EDD, dehydratase family |
| C_200083 | gi|39936346|ref|NP_948622.1| elongation factor Tu (Rhodopseudomonas palustris CGA009); u.a., EEF1, putative mitochondrial translation factor Tu; gnl|CDD|9925 COG0050, TufB, GTPases, translation elongation factors |
| C_750005 (A)* | gi|10441431|gb|AAG17036.1|S-adenosylmethionine synthetase (Pinus contorta) |
| C_1460023 (A)* | gi|619932|gb|AAB61446.1| isocitrate lyase |
| C_1600004 | gi|50660327|gb|AAT80888.1| chloroplast chaperonin 21 (Vitis vinifera) |
| Chloroplast 70S ribosome (33, 34) | |
| C_150160 | gi|34398358|gbAAO22241.1| 41-kDa ribosome-associated protein precursor (C. reinhardtii); u.a., chloroplast RNA-binding protein, chloroplast ribosome-associated RAP41 stem-loop binding protein |
a
*, proteins that appear in different subproteomes (A, flagella; B, centriole; C, thioredoxin target).
b
u.a., user annotation notes, which can be found on the JGI website under the gene model number; c.d., conserved domains.