Table 1.
An Overview of Residue-Specific Physiological ADPr Target Proteins
| Gene Name | AA | Intensity | No. of Sites | Primary ADPr | Fraction | Secondary ADPr | Fraction | Tertiary ADPr | Fraction | GOBP | GOCC |
|---|---|---|---|---|---|---|---|---|---|---|---|
| PARP1 | S | 1.1E+10 | 11 | S-499 | 67.1% | S-507 | 27.7% | S-519 | 4.3% | ADP-ribosylation | nucleus |
| Histone H2B∗ | S | 8.8E+9 | 8 | S-7 | 99.1% | R-80 | 0.6% | S-15 | 0.3% | nucleosome | chromosome |
| Histone H3∗ | S | 7.7E+9 | 2 | S-11 | 87.6% | S-29 | 12.4% | nucleosome | chromosome | ||
| NPM1 | S | 1.2E+9 | 8 | S-207 | 48.1% | S-139 | 26.3% | S-195 | 11.3% | cell cycle | nucleus |
| HIST1H4A | S | 1.1E+9 | 2 | S-2 | 99.5% | S-48 | 0.5% | nucleosome | chromosome | ||
| HNRNPU | S | 5.4E+8 | 2 | S-187 | 98.6% | S-695 | 1.4% | mRNA processing | nucleus | ||
| NOLC1 | S | 3.5E+8 | 6 | S-303 | 78.2% | S-580 | 19.8% | S-508 | 1.1% | cell cycle | nucleolus |
| HIST1H1E | S | 2.5E+8 | 3 | S-150 | 68.6% | S-55 | 26.5% | S-27 | 4.9% | nucleosome | chromosome |
| RFC1 | S | 2.1E+8 | 6 | S-1126 | 48.1% | S-302 | 34.1% | S-384 | 6.6% | DNA replication | nucleus |
| WDHD1 | S | 1.2E+8 | 3 | S-942 | 83.6% | S-900 | 10.0% | S-946 | 6.4% | DNA replication | nucleus |
| P4HB | R | 1.2E+9 | 1 | R-97 | 100.0% | isomerase | ER | ||||
| PDIA3 | R | 5.9E+8 | 1 | R-62 | 100.0% | isomerase | ER | ||||
| ASPH | R | 5.2E+8 | 1 | R-437 | 100.0% | hydrolase | ER | ||||
| GALNT2 | R | 2.1E+8 | 6 | R-93 | 59.4% | R-128 | 17.9% | R-113 | 10.7% | glycosyltransferase | Golgi |
| TXNDC5 | R | 1.5E+8 | 1 | R-394 | 100.0% | isomerase | ER | ||||
| PTPRG | R | 1.4E+8 | 1 | R-311 | 100.0% | hydrolase | membrane | ||||
| GOLIM4 | R | 1.2E+8 | 2 | R-110 | 66.3% | R-445 | 33.7% | transport | Golgi | ||
| PDIA6 | R | 1.0E+8 | 3 | R-142 | 55.2% | R-235 | 41.0% | R-153 | 3.8% | isomerase | ER |
| PIGS | R | 9.5E+7 | 1 | R-176 | 100.0% | transamidase | ER | ||||
| B2M | R | 8.7E+7 | 1 | R-32 | 100.0% | immunity | secreted | ||||
| HMGB1 | H | 2.4E+8 | 2 | H-117 | 99.8% | S-181 | 0.2% | DNA repair | nucleus | ||
| CPSF6 | H | 1.2E+8 | 1 | H-478 | 100.0% | mRNA processing | nucleus | ||||
| PCMT1 | H | 1.0E+8 | 1 | H-15 | 100.0% | methyltransferase | cytoplasm | ||||
| PPIA | H | 6.9E+7 | 3 | H-126 | 83.1% | C-52 | 15.4% | R-148 | 1.4% | isomerase | cytoplasm |
| PHIP | H | 5.4E+7 | 1 | H-779 | 100.0% | insulin signaling | nucleus | ||||
| FAM118B | H | 3.6E+7 | 1 | H-105 | 100.0% | Cajal body | nucleus | ||||
| XRCC5 | H | 3.0E+7 | 1 | H-152 | 100.0% | DNA repair | chromosome | ||||
| CAMSAP2 | H | 2.7E+7 | 1 | H-24 | 100.0% | microtubule | Golgi | ||||
| CELF1 | H | 2.6E+7 | 1 | H-89 | 100.0% | mRNA processing | nucleus | ||||
| MARF1 | H | 2.0E+7 | 1 | H-1205 | 100.0% | differentiation | peroxisome | ||||
| GMDS | C | 1.2E+8 | 1 | C-8 | 100.0% | dehydratase | cytoplasm | ||||
| NSUN2 | C | 1.1E+8 | 1 | C-271 | 100.0% | methyltransferase | mitochondrion | ||||
| PARP8 | C | 2.3E+7 | 3 | C-376 | 46.1% | C-395 | 39.4% | C-332 | 14.4% | ADP-ribosylation | ER |
| ASCC3 | C | 1.3E+7 | 1 | C-208 | 100.0% | hydrolase | nucleus | ||||
| NUMA1 | C | 5.5E+6 | 2 | C-2009 | 71.7% | H-1689 | 28.3% | cell cycle | nucleus | ||
| AP1G1 | C | 3.3E+6 | 1 | C-539 | 100.0% | transport | Golgi | ||||
| TXN | C | 9.9E+5 | 1 | C-73 | 100.0% | transport | mitochondrion | ||||
| NONO | C | 7.6E+5 | 1 | C-145 | 100.0% | mRNA processing | nucleus | ||||
| GSTM3 | C | 7.6E+5 | 1 | C-190 | 100.0% | transferase | cytoplasm | ||||
| PEX3 | Y | 1.4E+7 | 1 | Y-56 | 100.0% | peroxisome | peroxisome | ||||
| PARP14 | Y | 1.2E+7 | 3 | Y-895 | 51.1% | Y-1088 | 27.0% | Y-59 | 21.9% | ADP-ribosylation | nucleus |
| RPS3A | Y | 2.0E+6 | 1 | Y-155 | 100.0% | differentiation | nucleus |
A listing of the top 10 physiological ADPr target proteins mainly modified (>2/3rd intensity) on specific amino acid residue types. Only 9 and 3 proteins were mainly modified on cysteine and tyrosine, respectively. Residue types with less than 5 total ADPr sites were excluded. The top 3 most abundant ADPr sites are indicated. Multiple variants of the same histone type were merged, indicated with an asterisk (*). AA, main modified residue type; fraction, relative contribution of this ADPr site to the total ADPr modification of the protein; GOBP, Gene Ontology Biological Process; GOCC, Gene Ontology Cellular Compartment.