Table 1.
Summary of the Arabidopsis Icp55 substrates identified
| No | Accession | Gene description | Δicp55 | Removed amino acid | Identified sequence |
|---|---|---|---|---|---|
| 1 | AT1G17290 | Alanine aminotransferase | ↑↑ | L | LSSSSSSDMSASDSSSSLPVTLDTINPKVIKCEYAVR |
| ↓↓ | SSSSSSDMSASDSSSSLPVTLDTINPKVIKCEYAVR | ||||
| 2 | AT1G23800 | Aldehyde dehydrogenase 2B | ↑↑ | Y | YSNLAAAVENTITPPVKVEHTQLLIGGR |
| ↓↓ | SNLAAAVENTITPPVKVEHTQLLIGGR | ||||
| 3 | AT1G32350 | Alternative oxidase 1D | ↑↑ | L | LSSDTSSPVSGNNQPENPIR |
| ↓↓ | SSDTSSPVSGNNQPENPIR | ||||
| 4 | AT1G50940 | Electron transfer flavoprotein alpha | ↑↑ | I | ISISITSLSR |
| ↓↓ | SISITSLSR | ||||
| 5 | AT2G14170 | Aldehyde dehydrogenase 6B | ↑↑ | L | LSTSPEQSTQPQMPPR |
| ↓↓ | STSPEQSTQPQMPPR | ||||
| 6 | AT2G20360 | NAD(P)-binding Rossmann-fold superfamily protein | ↑↑ | Y | YSSSLATKGVGHLAR |
| ↓↓ | SSSLATKGVGHLAR | ||||
| 7 | AT3G06050 | Peroxiredoxin IIF | ↑↑ | F | FSKLAEGTDITSAAPGVSLQKAR |
| ↓↓ | SKLAEGTDITSAAPGVSLQKAR | ||||
| 8 | AT3G13860 | Hsp60-3 | ↑↑ | Y | YAAKDISFGIGAR |
| ↓↓ | AAKDISFGIGAR | ||||
| 9 | AT3G13930 | Dihydrolipoamide acetyltransferase | ↑↑ | F | FSSSSDLPPHQEIGMPSLSPTMTEGNIAR |
| ↓↓ | SSSSDLPPHQEIGMPSLSPTMTEGNIAR | ||||
| 10 | AT3G23990 | Hsp60 | ↑↑ | Y | YAAKEIKFGVEAR |
| ↓↓ | AAKEIKFGVEAR | ||||
| 11 | AT3G44370 | Oxa1 | ↑↑ | F | FSTPSDLDSELTR |
| ↓↓ | STPSDLDSELTR | ||||
| 12 | AT3G45770 | Polyketide synthase | ↑↑ | F | FSTIMSPPSKAIVYEEHGSPDSVTR |
| ↓↓ | STIMSPPSKAIVYEEHGSPDSVTR | ||||
| 13 | AT3G54980 | Pentatricopeptide repeat (PPR) protein | ↑↑ | FC | FCSQSQFPKESENPSQEQR |
| ↓↓ | SQSQFPKESENPSQEQR | ||||
| 14 | AT4G08900 | Arginase | ↑↑ | FT | FTSVSASSIEKGQNR |
| ↓↓ | SVSASSIEKGQNR | ||||
| 15 | AT4G35460 | NADPH-dependent thioredoxin reductase B | ↑↑ | F | FSSSAVMNGLETHNTR |
| ↓↓ | SSSAVMNGLETHNTR | ||||
| 16 | AT4G36400 | FAD-linked oxidases family protein | ↑↑ | F | FGSSAASLIQR |
| ↓↓ | GSSAASLIQR | ||||
| 17 | AT4G37910 | Hsp70-1 | ↑↑ | FC | FCSRPVGNDVIGIDLGTTNSCVSVMEGKTAR |
| ↓↓ | SRPVGNDVIGIDLGTTNSCVSVMEGKTAR | ||||
| 18 | AT5G09450 | Pentatricopeptide repeat (PPR) protein | ↑↑ | YN | YNADAAIGNSLVEESEEKDDLKSR |
| ↓↓ | ADAAIGNSLVEESEEKDDLKSR | ||||
| 19 | AT5G47630 | Mitochondrial acyl carrier protein 3 | ↑↑ | FT | FTSEAAADGGQDQILSR |
| ↓↓ | SEAAADGGQDQILSR | ||||
| 20 | AT5G50850 | Transketolase family protein | ↑↑ | Y | YAAGAKEMTVR |
| ↓↓ | AAGAKEMTVR | ||||
| 21 | AT5G55070 | Dihydrolipoamide succinyltransferase | ↑↑ | F | FSSDSGDVVEAVVPHMGESITDGTLAAFLKKPGDR |
| ↓↓ | SSDSGDVVEAVVPHMGESITDGTLAAFLKKPGDR | ||||
| 22 | AT4G08390 | Ascorbate peroxidase | ↑↑ | FN | FNSTTAATKSSSSDPDQLKNAR |
| ↓↓ | STTAATKSSSSDPDQLKNAR | ||||
| 23 | AT1G63940 | Monodehydroascorbate reductase 6 | ↑↑ | L | LVTASFANENR |
| ↓↓ | VTASFANENREFVIVGGGNAAGYAAR | ||||
| 24 | AT3G58140 | Phenylalanyl-tRNA synthetase | ↑↑ | F | FSSSAAYSPPKMR |
| ↓↓ | SSSAAYSPPKMR | ||||
| 25 | AT5G04780 | Pentatricopeptide repeat (PPR) protein | ↑↑ | I | ISVLASYDQEEVSPGR |
| ↓↓ | SVLASYDQEEVSPGR | ||||
| 26 | AT5G08670 | ATP synthase beta | ↑↑ | Y | YATSSPASSAAPSSAPAKDEGKKTYDYGGKGAIGR |
| ATSSPASSAAPSSAPAKDEGKKTYDYGGKGAIGR | |||||
| 27 | AT4G32915 | Protein coding | ↑↑ | Y | YSSDSDSSVLQPPDVAR |
| ↓↓ | SSDSDSSVLQPPDVAR | ||||
| 28 | AT1G77170 | Pentatricopeptide repeat (PPR) protein | ↑↑ | F | FVTTSSSSVTPLSPQDR |
| ↓↓ | VTTSSSSVTPLSPQDR | ||||
| 29 | AT1G09410 | Pentatricopeptide repeat (PPR) protein | ↓↓ | Y | STTIPPPTANVR |
| 30 | AT1G80230 | Rubredoxin-like superfamily protein | ↓↓ | I | GSAAADTAVKKR |
| 31 | AT1G51965 | Pentatricopeptide repeat (PPR) protein | ↓↓ | Y | ATKYVAKVTSSSPSGR |
| 32 | AT1G71210 | Pentatricopeptide repeat (PPR) protein | ↓↓ | F | STFTKPSSSIAPGDFLVR |
| 33 | AT1G80550 | Pentatricopeptide repeat (PPR) protein | ↓↓ | L | SVKPISNVDDAKFR |
| 34 | AT2G18520 | Pentatricopeptide repeat (PPR) protein | F | FSTATGIDSQTTAYPGAITMSKAKSKLR | |
| ↓↓ | STATGIDSQTTAYPGAITMSKAKSKLR | ||||
| 35 | AT2G26140 | FTSH protease 4 | Q | QSSYVGSFAR | |
| ↓↓ | SSYVGSFAR | ||||
| 36 | AT2G31955 | Cofactor of nitrate reductase | ↓↓ | F | SSSYAAHQVDQIKDNPVSDMLIDKFGR |
| 37 | AT2G38400 | Alanine:glyoxylate aminotransferase 3 | ↓↓ | I | SSTSQAATASVKDSDEFQAR |
| 38 | AT2G39795 | Mitochondrial glycoprotein family protein | ↓↓ | Y | STAIDRISSEQTLIR |
| 39 | AT2G43360 | Radical SAM superfamily protein | Y | YSSLSAASAEAER | |
| ↓↓ | SSLSAASAEAER | ||||
| 40 | AT2G47510 | Fumarase 1 | ↓↓ | Y | STSFREERDTFGPIQVPSDKLWGAQTQR |
| 41 | AT3G02090 | MPP beta | ↓↓ | Y | ASPHPILASHNHILSAPETR |
| 42 | AT3G15590 | Pentatricopeptide repeat (PPR) protein | L | LSSIADAKDKGDEVVR | |
| ↓↓ | SSIADAKDKGDEVVR | ||||
| 43 | AT3G22470 | Pentatricopeptide repeat (PPR) protein | ↓↓ | Y | SSITEAKLSYKER |
| 44 | AT3G60510 | ATP-dependent caseinolytic (Clp) protease | ↓↓ | C | SLKLTSEDLDYQVLVEGSGCSR |
| 45 | AT4G31810 | ATP-dependent caseinolytic (Clp) protease | ↓↓ | F | SALPNYSASDADFEDQVLVEGKAKSR |
| 46 | AT5G08680 | ATP synthase beta | ↓↓ | Y | STSSPANSAAPSSAPAKDEGKKTYDYGGKGAIGR |
| 47 | AT5G15280 | Pentatricopeptide repeat (PPR) protein | ↓↓ | F | STSSPASSSSSSLGNDSAIPR |
| 48 | AT5G23140 | Nuclear-encoded CLP protease P7 | ↓↓ | Y | SLIPMVIEHSSR |
| 49 | AT5G60960 | Pentatricopeptide repeat (PPR) protein | ↓↓ | F | SSETNAESESLDSNEIALSFSKELTGNPDAESQTISQR |
| 50 | AT3G02780 | Isopentenyl pyrophosphate isomerase 2 | F | FSGTAMTDTKDAGMDAVQR | |
| ↓↓ | SGTAMTDTKDAGMDAVQR | ||||
| 51 | AT3G59760 | O-acetylserine (thiol) lyase isoform C | ↓↓ | F | ADGSERDPSVVCEAVKR |
| 52 | AT3G49240 | Pentatricopeptide repeat (PPR) protein | ↓↓ | M | SFATQEEAAAERR |
| 53 | AT1G24880 | UDP-3-O-acyl N-acetylglycosamine deacetylase | ↑↑ | Y | YSSAASSPTVSLNPSGR |
| 54 | AT1G48030 | Mitochondrial lipoamide dehydrogenase 1 | ↑↑ | F | FASSGSDENDVVIIGGGPGGYVAAIKASQLGLKTTCIEKR |
| ASSGSDENDVVIIGGGPGGYVAAIKASQLGLKTTCIEKR | |||||
| 55 | AT1G49650 | Alpha/beta-Hydrolases superfamily protein | ↑↑ | I | ICSHSSSEIISEHPPFVR |
| 56 | AT1G54220 | Dihydrolipoamide acetyltransferase | ↑↑ | F | FSSGSDLPPHQEIGMPSLSPTMTEGNIAR |
| 57 | AT1G65290 | Mitochondrial acyl carrier protein 2 | ↑↑ | F | FSEEVRGSFLDKSEVTDR |
| SEEVRGSFLDKSEVTDR | |||||
| 58 | AT2G27730 | Copper ion binding | ↑↑ | F | FSSGKVLSEEER |
| SSGKVLSEEER | |||||
| 59 | AT2G44620 | Mitochondrial acyl carrier protein 1 | ↑↑ | F | FSSHDDHLSR |
| 60 | AT3G03070 | NADH-ubiquinone oxidoreductase-related; | ↑↑ | F | FSVATTQLGIPTDDLVGNHTAKWMQDR |
| SVATTQLGIPTDDLVGNHTAKWMQDR | |||||
| 61 | AT3G15020 | Lactate/malate dehydrogenase family protein | ↑↑ | F | FASESVPDR |
| 62 | AT3G15640 | Rubredoxin-like superfamily protein | ↑↑ | F | FSSDSVETPATKKVEDVMPIATGHEKEELEAELEGR |
| SSDSVETPATKKVEDVMPIATGHEKEELEAELEGR | |||||
| 63 | AT3G17240 | Lipoamide dehydrogenase 2 | ↑↑ | F | FASSGSDDNDVVIIGGGPGGYVAAIKAAQLGLKTTCIEKR |
| ASSGSDDNDVVIIGGGPGGYVAAIKAAQLGLKTTCIEKR | |||||
| 64 | AT3G30775 | Methylenetetrahydrofolate reductase family protein | ↑↑ | F | FSSIPTSDLLR |
| 65 | AT3G48000 | Aldehyde dehydrogenase 2B | ↑↑ | F | FGTSSAAAEEIINPSVQVSHTQLLINGNFVDSASGKTFPTLD |
| GTSSAAAEEIINPSVQVSHTQLLINGNFVDSASGKTFPTLD | |||||
| 66 | AT4G26910 | Dihydrolipoamide succinyltransferase | ↑↑ | F | FSAETGDTVEAVVPHMGESITDGTLATFLKKPGER |
| SAETGDTVEAVVPHMGESITDGTLATFLKKPGER | |||||
| 67 | AT4G35850 | Pentatricopeptide repeat (PPR) protein | ↑↑ | F | FASSPEEIAKR |
| ASSPEEIAKR | |||||
| 68 | AT5G08300 | Succinyl-CoA ligase, alpha subunit; | ↑↑ | F | FASDPHPPAAVFVDKNTR |
| ASDPHPPAAVFVDKNTR | |||||
| 69 | AT5G09590 | Hsp70-2 | ↑↑ | F | FSSKPAGNDVIGIDLGTTNSCVAVMEGKNPKVIENAEGAR |
| SSKPAGNDVIGIDLGTTNSCVAVMEGKNPKVIENAEGAR | |||||
| 70 | AT5G23250 | Succinyl-CoA ligase | ↑↑ | F | FGTTPPPPAAVFVDKNTR |
| GTTPPPPAAVFVDKNTR | |||||
| 71 | AT5G67590 | NADH-ubiquinone oxidoreductase-related | ↑↑ | F | FATDAVVESDYKR |
| ATDAVVESDYKRGEIGKVSGIPEEHLSR | |||||
| 72 | AT5G64050 | Glutamate tRNA synthetase | ↑↑ | F | FAVVACSTPVNNGGSVR |
| AVVACSTPVNNGGSVR | |||||
| 73 | AT1G53240 | Lactate/malate dehydrogenase family protein | ↑↑ | F | FSSGSVPER |
| 74 | AT1G47720 | Primosome PriB/single-strand DNA-binding | ↑↑ | F | FSDGESAVYHHAR |
Up (↑↑) and down (↓↓) regulation of peptides in the Δicp55 mitochondria (only peptides with at least a 3-fold change were considered). The identified peptide sequence is shown, as well as the amino acid (or amino acids) removed by AtICP55.