4XRU
Structure of Pnkp1/Rnl/Hen1 complex
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0003690 | molecular_function | double-stranded DNA binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0006281 | biological_process | DNA repair |
| A | 0046403 | molecular_function | polynucleotide 3'-phosphatase activity |
| A | 0046404 | molecular_function | ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0047846 | molecular_function | deoxynucleotide 3'-phosphatase activity |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0005524 | molecular_function | ATP binding |
| B | 0046872 | molecular_function | metal ion binding |
| C | 0001510 | biological_process | RNA methylation |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0008168 | molecular_function | methyltransferase activity |
| C | 0008171 | molecular_function | O-methyltransferase activity |
| C | 0008173 | molecular_function | RNA methyltransferase activity |
| C | 0016070 | biological_process | RNA metabolic process |
| C | 0016740 | molecular_function | transferase activity |
| C | 0030422 | biological_process | siRNA processing |
| C | 0031047 | biological_process | regulatory ncRNA-mediated gene silencing |
| C | 0032259 | biological_process | methylation |
| D | 0000166 | molecular_function | nucleotide binding |
| D | 0003690 | molecular_function | double-stranded DNA binding |
| D | 0005524 | molecular_function | ATP binding |
| D | 0006281 | biological_process | DNA repair |
| D | 0046403 | molecular_function | polynucleotide 3'-phosphatase activity |
| D | 0046404 | molecular_function | ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity |
| D | 0046872 | molecular_function | metal ion binding |
| D | 0047846 | molecular_function | deoxynucleotide 3'-phosphatase activity |
| E | 0000166 | molecular_function | nucleotide binding |
| E | 0005524 | molecular_function | ATP binding |
| E | 0046872 | molecular_function | metal ion binding |
| F | 0001510 | biological_process | RNA methylation |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0008168 | molecular_function | methyltransferase activity |
| F | 0008171 | molecular_function | O-methyltransferase activity |
| F | 0008173 | molecular_function | RNA methyltransferase activity |
| F | 0016070 | biological_process | RNA metabolic process |
| F | 0016740 | molecular_function | transferase activity |
| F | 0030422 | biological_process | siRNA processing |
| F | 0031047 | biological_process | regulatory ncRNA-mediated gene silencing |
| F | 0032259 | biological_process | methylation |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | binding site for residue MG A 401 |
| Chain | Residue |
| A | ASP183 |
| A | ASP185 |
| A | ASP288 |
| A | HOH506 |
| site_id | AC2 |
| Number of Residues | 12 |
| Details | binding site for residue ATP A 402 |
| Chain | Residue |
| A | LYS24 |
| A | SER25 |
| A | THR26 |
| A | THR87 |
| A | ARG122 |
| B | ASN370 |
| B | GLU372 |
| A | ALA19 |
| A | PRO20 |
| A | GLY21 |
| A | SER22 |
| A | GLY23 |
| site_id | AC3 |
| Number of Residues | 19 |
| Details | binding site for residue ATP B 501 |
| Chain | Residue |
| B | THR25 |
| B | ILE26 |
| B | GLU59 |
| B | LYS60 |
| B | LYS61 |
| B | TYR62 |
| B | TYR66 |
| B | ARG83 |
| B | GLU120 |
| B | PHE234 |
| B | GLU294 |
| B | LYS299 |
| B | LYS313 |
| B | ARG315 |
| B | LYS344 |
| B | LEU394 |
| B | MG505 |
| B | HOH608 |
| B | HOH620 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | binding site for residue MES B 502 |
| Chain | Residue |
| B | SER32 |
| B | VAL33 |
| B | GLU34 |
| B | GLU43 |
| site_id | AC5 |
| Number of Residues | 4 |
| Details | binding site for residue GOL B 503 |
| Chain | Residue |
| B | GLU39 |
| B | ARG315 |
| B | ASN317 |
| B | HOH618 |
| site_id | AC6 |
| Number of Residues | 6 |
| Details | binding site for residue GOL B 504 |
| Chain | Residue |
| B | THR78 |
| B | ILE88 |
| B | ASN89 |
| B | LEU91 |
| B | GLN93 |
| B | LEU97 |
| site_id | AC7 |
| Number of Residues | 5 |
| Details | binding site for residue MG B 505 |
| Chain | Residue |
| B | GLY64 |
| B | GLU120 |
| B | ATP501 |
| B | HOH606 |
| B | HOH608 |
| site_id | AC8 |
| Number of Residues | 4 |
| Details | binding site for residue PO4 B 506 |
| Chain | Residue |
| B | ASN250 |
| B | ASP251 |
| B | ARG301 |
| B | THR302 |
| site_id | AC9 |
| Number of Residues | 9 |
| Details | binding site for residue SAH C 501 |
| Chain | Residue |
| C | ARG253 |
| C | GLY271 |
| C | ASP296 |
| C | THR297 |
| C | THR337 |
| C | GLU338 |
| C | HIS342 |
| C | THR344 |
| C | LEU351 |
| site_id | AD1 |
| Number of Residues | 2 |
| Details | binding site for residue MG C 502 |
| Chain | Residue |
| C | GLN64 |
| C | TYR122 |
| site_id | AD2 |
| Number of Residues | 5 |
| Details | binding site for residue PO4 C 503 |
| Chain | Residue |
| C | ASN369 |
| C | GLY417 |
| C | GLY424 |
| C | GLU425 |
| C | THR426 |
| site_id | AD3 |
| Number of Residues | 4 |
| Details | binding site for residue MG D 401 |
| Chain | Residue |
| D | ASP183 |
| D | ASP185 |
| D | ASP288 |
| D | HOH507 |
| site_id | AD4 |
| Number of Residues | 8 |
| Details | binding site for residue ATP D 402 |
| Chain | Residue |
| D | PRO20 |
| D | GLY21 |
| D | GLY23 |
| D | LYS24 |
| D | SER25 |
| D | THR26 |
| E | ASN370 |
| E | GLU372 |
| site_id | AD5 |
| Number of Residues | 15 |
| Details | binding site for residue ATP E 501 |
| Chain | Residue |
| E | MG502 |
| E | HOH613 |
| E | THR25 |
| E | ILE26 |
| E | LYS60 |
| E | LYS61 |
| E | TYR62 |
| E | TYR66 |
| E | ARG83 |
| E | GLU120 |
| E | PHE234 |
| E | GLU294 |
| E | LYS313 |
| E | ARG315 |
| E | LEU394 |
| site_id | AD6 |
| Number of Residues | 5 |
| Details | binding site for residue MG E 502 |
| Chain | Residue |
| E | TYR62 |
| E | GLU120 |
| E | GLU294 |
| E | ATP501 |
| E | HOH607 |
| site_id | AD7 |
| Number of Residues | 3 |
| Details | binding site for residue PO4 E 503 |
| Chain | Residue |
| E | ASP110 |
| E | TYR241 |
| E | ARG245 |
| site_id | AD8 |
| Number of Residues | 10 |
| Details | binding site for residue SAH F 501 |
| Chain | Residue |
| F | HIS250 |
| F | GLY271 |
| F | GLY273 |
| F | ASP296 |
| F | THR297 |
| F | THR337 |
| F | VAL339 |
| F | ASN343 |
| F | THR344 |
| F | LEU351 |
| site_id | AD9 |
| Number of Residues | 3 |
| Details | binding site for residue MG F 502 |
| Chain | Residue |
| F | GLN64 |
| F | TYR122 |
| F | TYR181 |
| site_id | AE1 |
| Number of Residues | 4 |
| Details | binding site for residue PO4 F 503 |
| Chain | Residue |
| F | TYR57 |
| F | HIS176 |
| F | TYR181 |
| F | TYR184 |
| site_id | AE2 |
| Number of Residues | 5 |
| Details | binding site for residue PO4 F 504 |
| Chain | Residue |
| F | ASN369 |
| F | PRO395 |
| F | GLY424 |
| F | GLU425 |
| F | THR426 |
