Table 4.
List of unique peptides.
| Sample slice | Protein attribution | Log(e) peptide | Peptide sequences | TBLASTN (Drzompo) | E-value (Drzompo) | Functional annotation | Mr (kDa) |
|---|---|---|---|---|---|---|---|
| (A) | |||||||
| 4S | gi|38154488| gb|AY368906|-1 gpmDB [20/28] protein | 3.3 | MAEAETFAFQAEINQLLSLIINTFYSNK | Zoma_C_c66842 | 2.00e-08 | Heat shock protein 81-3 | 80.1 |
| 4S | gi|38154492| gb|AY368907|-1 gpmDB [21/29] homo (3/3) protein | −6.7 | DLVLLLFETALLTSGFSLEEPNTFGNR | Pooc_Contig353 | 1.00e-10 | Heat shock cognate protein 80 | 80.1 |
| 7S | At3g23810.1 gpmDB [83/146] homo (10/10) protein | −4.2 | WVFPDTNSGIIVLAEGR | Zoma_C_c68954 | 0.001 | Adenosylhomocysteinase 1 | 53.1 |
| 7S | gi|119350|sp|P25696.1 | −2.8 | SGETEDTFIADLAVGLSTGQIK | Zoma_C_c67987 | 3 | Enolase 1 | 47.9 |
| 7S | At2g28000.1 gpmDB [61/93] homo (5/5) protein | −10 | GGYPILIIAEDIEQEALATLVVNK | Zoma_C_c58171 | 2 | RuBisCO large subunit-binding protein subunit beta, chloroplastic | 62.9 |
| 8S | ATCG00490.1 gpmDB [74/111] homo (0/33)protein | −56.9 | TFQGPPHGIQVER | Pooc_B_rp6_D3_R | 2.7 | Auxin response factor 24 | 50.5 |
| 10S | gi|48752579| gb|CO083098|-3 gpmDB [10/11] homo (1/1) protein | −3.1 | TLLVSAPGLGDYISGAILFEETLYQSTIDGK | Pooc_PC035C04 | 3.00e-00 | Fructose-bisphosphate aldolase, chloroplastic | 32.7 |
| 10S | gi|156725011| gb|EV229122|-1 gpmDB [1/7] homo (2/93) protein | −30.2 | FGIVEGLMTTVHSITATQK | Pooc_Contig14 | 6e-05 | Glyceraldehyde-3-phosphate dehydrogenase | 54.7 |
| 10S | gi|82621107| gb|DQ284454|-3 gpmDB [8/10] homo (0/3) protein | −8.6 | NDLEFAKKLASLADLYVNDAFGTAHR | Pooc_PC021E08 | 2.00e+00 | Phosphoglycerate kinase, cytosolic | 52.1 |
| 10S | gi|150162092| gb|EE553762|-1 gpmDB [0/1] protein | −2.4 | DALFKHANIKPIITSTVWK | Pooc_PC044A11 | 0.22 | Plant protein 1589 of unknown function | 16.8 |
| 12S | gi|73880486| gb|DT483224|3 gpmDB [0/1] homo (5/5) protein | −1.9 | NPLNYTQVSVLADDILK | Zoma_C_c45955 | 0.004 | ATP synthase subunit gamma, mitochondrial | 32.7 |
| 15S | Pooc_B_rp7_C5_R_6 | −12.7 | NSPNSFDPLGLAEDPEAFAELK | Pooc_B_rp7_C5_R | 2.00e-08 | Chlorophyll a-b-binding protein 40, chloroplastic | 31.6 |
| 16S | gi|52390306| gb|CV233595|3 gpmDB [0/1] homo (12/12) | −2.7 | LTGTDVGYPGGLWFDPLGWGSGSPEK | Pooc_B_c320 | 0.28 | Chlorophyll a-b-binding protein CP24 10A, chloroplastic | 26.6 |
| 16S | gi|48389884| gb|CN917384|-3 gpmDB [9/10] protein | −2.9 | NEVPVISPEQLAEADGIIFGFPTR | Zoma_C_c56810 | 2 | Flavoprotein wrbA | 22.7 |
| 17S | gi|38605705|sp|P05642.2| | −3.1 | IVTGVPEAIPVIGSPLVELLR | Zoma_C_c33944 | 9 | Cytochrome b6 | 33.4 |
| 17S | gi|73875282| gb|DT478020|-3 gpmDB [0/1] homo (2/2) protein | −6 | IVIGLFGDDVPQTAENFR | Pooc_PC015E05 | 8 | Peptidyl-prolyl cis-trans isomerase CYP20-1 | 31.3 |
| (B) | |||||||
| 4D | sp|Q6L509|Q6L509_ORYSA | −11.2 | IINEPTAAAIAYGLDK | Zoma_C_c66491 | 0.005 | Heat shock cognate 70 kDa protein 2 | 70 |
| 6D | gi|116010686| gb|AK241321|-2 | −1.8 | GGECVGGGGGGGGGGGAEAR | Pooc_Contig164 | 0.0000001 | 60S ribosomal protein L9 | 88 |
| 6D | gi|194694909|gb|BT036534|-3 | −1.8 | GDVADGVFLGHADWPR | Pooc_B_c93 | 9.6 | Probable eukaryotic translation initiation factor 5-2 | 51.6 |
| 7D | At2g28000.1 gpmDB [72/113] homo (6/19) protein | −9.3 | APLLIIAEDVTGEALATLVVNK | Zoma_C_c57597 | 0.00003 | RuBisCO large subunit-binding protein subunit alpha | 52.3 |
| 10D | gi|187950292| gb|AY103880|-3 gpmDB [0/1] protein | −4.8 | LVDTNGAGDAFVGGFLSQLVLGK | Pooc_PC010D04 | 0.87 | Fructokinase-2 | 55.5 |
| 12D | gi|34959481| gb|CA106174|-2 gpmDB [0/1] protein | −1.7 | AARPPPAGTPPPR | Pooc_PC019C02 | 0.26 | Putative low molecular weight protein-tyrosine-phosphatase slr0328 | 28.5 |
| 13D | At5g65430.1gpmDB [53/81]homo (38/38) protein | −3.7 | QAFEEAIAELDTLGEESYK | Pooc_PC039D11 | 0.00001 | 14-3-3-like protein C | 28 |
| 14D | At4g10340.1gpmDB [40/73]homo (12/12) protein | −4.1 | TGALLLDGNTLNYFGK | Pooc_Contig159 | 0.00005 | Chlorophyll a-b-binding protein CP26, chloroplastic | 30.1 |
| 14D | gi|110373880|gb|EC938302|3 gpmDB [0/3] homo (0/7) protein | −14 | QEDIDGFLVGGASLK | Zoma_C_c59451 | 0.028 | Triosephosphate isomerase, chloroplastic | 34.5 |
| 15D | gi|45990591| gb|CN149099|-3gpmDB [0/5]homo (9/51) protein | −12 | TDEFPGDYGWDTAGLSADPETFAK | Pooc_B_c360 | 1.00e-09 | Chlorophyll a-b-binding protein of LHCII type I | 33 |
| 15D | gi|73873524| gb|DT476262|2 gpmDB [0/6] homo (0/14) protein | −10.8 | SEIPEYLTGEVPGDYGYDPFGLSK | 0.00004 | |||
| 15D | Zoma_C_c15686_5 | −10 | ELEVIHTRWAMLGTLGCVFPELLSR | 0.0006 | |||
| 15D | gi|157980300| gb|EX528572|-3 gpmDB [0/12] homo (0/15) protein | −29.5 | YLGSFSGEAPSYLTGEFPGDYGWD TAGLSADPETFAK | 1.00e-15 | |||
| 15D | Zoma_C_c34383_5 | −10.7 | EPNSIFGVGGITMRRNTVK | Pooc_B_c132 | 0.005 | Chlorophyll a-b-binding protein 21, chloroplastic | 28.2 |
| 16D | Pooc_Contig333_3 | −21.8 | SKVEDGIFGTSGGIGFTK | Pooc_Contig333 | 0.00003 | Photosystem II 22 kDa protein, chloroplastic | 29.3 |
| 16D | −10.3 | VAMLGFAASIFGEAITGK | 0.00003 | ||||
| 18D | Pooc_PC011B10 | −18 | TEIEGDGGVGTTTK | Pooc_PC011B10 | 0.001 | 14 kDa proline-rich protein DC2.15 | 14.3 |
| 18D | Pooc_Contig48_2 | −11.5 | VWDFCGSSQLMQLLPK | Pooc_Contig48 | 0.000002 | S-norcoclaurine synthase | 23.3 |
| −10.2 | QIEGGHLDLGFLSSHSR | 0.000007 | |||||
| Pooc_Contig132_3 | −18 | VWDFCASCQLMQLLPK | Pooc_Contig132 | 7.00e-07 | |||
| 21D | At5g38430.1 gpmDB [31/51] homo (6/6) protein | −3 | EHGNTPGYYDGR | Pooc_Contig3 | 0.001 | Ribulose bisphosphate carboxylase small chain SSU5B, chloroplastic | 18.9 |
| 22D | LOC_Os01g61920.1 homo (267/267) | −2.5 | TVTAMDVVYALK | Pooc_B_rp10_E10_R | 0.018 | Histone H4 | 11.4 |
| 23D | gi|27548338| gb|CA766549| | −3.3 | FDSLEQLDEFSR | Zoma_C_c60643 | 1.6 | Cytochrome b559 subunit alpha | 9.3 |
Log (e): the base-10 log of the expectation that any particular peptide assignment was made at random.
List of unique peptides identified within the 23 slices of 1DE gel of proteins from (A) shallow samples and (B) deep samples. In the table are shown: the protein attribution obtained by GPM and X!TANDEM softwares with the corresponding log(e) values, the peptide sequence, the annotation obtained with TBLASTN search against Dr.Zompo database, with the corresponding E-values and putative functions, the molecular mass of the protein sequence, in kilodaltons.