Table 3. Darkness-decreased proteins in chloroplast.
| No a | Protein name b | Protein Number c | Gene Number d | Sub-localization e | D/L Ratio ± SD f |
|---|---|---|---|---|---|
| Chlorophyll synthesis (1)g | |||||
| 1 | Magnesium-chelatase subunit ChlD | Q9SJE1 | AT1G08520 | Chl | 0.72±0.04 |
| Transcription (4) | |||||
| 2 | chloroplast RNA-binding protein 33 (PDE322) | Q39061 | AT3G52380 | S | 0.67±0.03 |
| 3 | 31-kDa RNA binding protein (RBP31) | Q94EH5 | AT4G24770 | S | 0.53±0.01 |
| 4 | RNA-binding (RRM/RBD/RNP motifs) family protein(PSRP2) | Q8VYM4 | AT3G52150 | R | 0.56±0.02 |
| 5 | plastid transcriptionally active 5(pTAC5) | A1A6M1 | AT4G13670 | N | 0.71±0.03 |
| Protein synthesis (18) | |||||
| 6 | Translation initiation factor IF-2 (FUG1) | Q9SHI1 | AT1G17220 | S | 0.65±0.03 |
| 7 | Putative ribosomal protein S1 (RPS1) | Q93VC7 | AT5G30510 | R | 0.59±0.01 |
| 8 | 30S ribosomal protein S3 (RPS3) | P56798 | ATCG00800 | R | 0.72±0.01 |
| 9 | 30S ribosomal protein S5 (RPS5) | P93014 | AT2G33800 | R | 0.35±0.00 |
| 10 | 30S ribosomal protein S20 (RPS20) | Q9ASV6 | AT3G15190 | R | 0.44±0.02 |
| 11 | 50S ribosomal protein L1(RPL1) | Q9LY66 | AT3G63490 | R | 0.50±0.04 |
| 12 | 50S ribosomal protein L2 (RPL2) | P56791 | ATCG00830 | R | 0.70±0.03 |
| 13 | Ribosomal protein L4 (RPL4) | Q0WW46 | AT1G07320 | R | 0.44±0.03 |
| 14 | Ribosomal L5P family protein (RPL5P) | O04603 | AT4G01310 | R | 0.36±0.04 |
| 15 | 50S ribosomal protein L9 (RPL9) | P25864 | AT3G44890 | R | 0.45±0.02 |
| 16 | Ribosomal protein L10 family protein (RPL10) | B5X0P0 | AT5G13510 | R | 0.53±0.02 |
| 17 | 50S ribosomal protein L12-1 (RPL12) | P36210 | AT3G27830 | R | 0.55±0.02 |
| 18 | 50S ribosomal protein L14 (RPL14) | P56792 | ATCG00780 | R | 0.67±0.02 |
| 19 | 50S ribosomal protein L15 (RPL15) | P25873 | AT3G25920 | R | 0.53±0.03 |
| 20 | 50S ribosomal protein L21 (RPL21) | P51412 | AT1G35680 | R | 0.32±0.04 |
| 21 | 50S ribosomal protein L24 (RPL24) | P92959 | AT5G54600 | R | 0.26±0.02 |
| 22 | 50S ribosomal protein L31 (RPL31) | Q9FWS4 | AT1G75350 | R | 0.44±0.04 |
| 23 | Ribosomal L29 family protein (RPL29) | B9DH43 | AT5G65220 | R | 0.24±0.03 |
| Transportation (2) | |||||
| 24 | Heavy metal transport/detoxification superfamily protein | Q93VK7 | AT5G14910 | S | 0.52±0.04 |
| 25 | Triose phosphate/phosphate translocator (TPT) | F4KG18 | AT5G46110 | IE | 0.60±0.04 |
| Unknown (1) | |||||
| 26 | Uncharacterized protein | Q0WMN5 | AT3G49140 | Chl | 0.68±0.04 |
a Numberical list of dark-responsive proteins.
b Protein name and the abbreviation commonly used for the protein. The proteins were classified according to their functions.
c Protein number given by Uniprot_Arabidopsis database.
d Gene number, by converting identified protein ID to gene number in TAIR database.
e Subcellular localization of each chloroplastic protein according to PPDB database.
f D/L Ratio ± SD is shown as protein ratios with standard deviations.
g Functional group with number of proteins in this group. The abbreviations: D, dark-treated samples; L, control samples. SD, standard deviation. D/L means protein abundance value of dark sample divided by value of control sample. SD: standard deviation. Chl: chloroplast; IE: envelope-inner-integral; S: plastid stroma; R: plastid ribosome; N: plastid nucleoid.