4KLD
DNA polymerase beta matched substrate complex with Ca2+, 0 s
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0001701 | biological_process | in utero embryonic development |
| A | 0003677 | molecular_function | DNA binding |
| A | 0003684 | molecular_function | damaged DNA binding |
| A | 0003887 | molecular_function | DNA-directed DNA polymerase activity |
| A | 0003906 | molecular_function | DNA-(apurinic or apyrimidinic site) endonuclease activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005634 | cellular_component | nucleus |
| A | 0005654 | cellular_component | nucleoplasm |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005874 | cellular_component | microtubule |
| A | 0005876 | cellular_component | spindle microtubule |
| A | 0006260 | biological_process | DNA replication |
| A | 0006261 | biological_process | DNA-templated DNA replication |
| A | 0006281 | biological_process | DNA repair |
| A | 0006284 | biological_process | base-excision repair |
| A | 0006287 | biological_process | base-excision repair, gap-filling |
| A | 0006290 | biological_process | pyrimidine dimer repair |
| A | 0006297 | biological_process | nucleotide-excision repair, DNA gap filling |
| A | 0006303 | biological_process | double-strand break repair via nonhomologous end joining |
| A | 0006915 | biological_process | apoptotic process |
| A | 0006954 | biological_process | inflammatory response |
| A | 0006974 | biological_process | DNA damage response |
| A | 0007435 | biological_process | salivary gland morphogenesis |
| A | 0008017 | molecular_function | microtubule binding |
| A | 0008630 | biological_process | intrinsic apoptotic signaling pathway in response to DNA damage |
| A | 0010332 | biological_process | response to gamma radiation |
| A | 0016445 | biological_process | somatic diversification of immunoglobulins |
| A | 0016446 | biological_process | somatic hypermutation of immunoglobulin genes |
| A | 0016740 | molecular_function | transferase activity |
| A | 0016779 | molecular_function | nucleotidyltransferase activity |
| A | 0016829 | molecular_function | lyase activity |
| A | 0019899 | molecular_function | enzyme binding |
| A | 0032991 | cellular_component | protein-containing complex |
| A | 0034061 | molecular_function | DNA polymerase activity |
| A | 0045471 | biological_process | response to ethanol |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0048535 | biological_process | lymph node development |
| A | 0048536 | biological_process | spleen development |
| A | 0048872 | biological_process | homeostasis of number of cells |
| A | 0051402 | biological_process | neuron apoptotic process |
| A | 0051575 | molecular_function | 5'-deoxyribose-5-phosphate lyase activity |
| A | 0055093 | biological_process | response to hyperoxia |
| A | 0071707 | biological_process | immunoglobulin heavy chain V-D-J recombination |
| A | 0071897 | biological_process | DNA biosynthetic process |
| A | 0140078 | molecular_function | class I DNA-(apurinic or apyrimidinic site) endonuclease activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 19 |
| Details | BINDING SITE FOR RESIDUE DCP A 401 |
| Chain | Residue |
| A | ARG149 |
| A | THR273 |
| A | GLY274 |
| A | ASP276 |
| A | ASN279 |
| A | CA402 |
| A | CA403 |
| A | HOH516 |
| A | HOH528 |
| P | DC10 |
| T | DG6 |
| A | GLY179 |
| A | SER180 |
| A | ARG183 |
| A | GLY189 |
| A | ASP190 |
| A | ASP192 |
| A | TYR271 |
| A | PHE272 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CA A 402 |
| Chain | Residue |
| A | ASP190 |
| A | ASP192 |
| A | DCP401 |
| A | CA403 |
| A | HOH529 |
| site_id | AC3 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE CA A 403 |
| Chain | Residue |
| A | ASP190 |
| A | ASP192 |
| A | ASP256 |
| A | DCP401 |
| A | CA402 |
| A | HOH528 |
| P | DC10 |
| site_id | AC4 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE NA A 404 |
| Chain | Residue |
| A | THR101 |
| A | VAL103 |
| A | ILE106 |
| A | HOH531 |
| P | DG9 |
| P | HOH111 |
| site_id | AC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE NA A 405 |
| Chain | Residue |
| A | LYS60 |
| A | LEU62 |
| A | VAL65 |
| A | HOH567 |
| D | DC3 |
| D | HOH101 |
| site_id | AC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL A 406 |
| Chain | Residue |
| A | GLN264 |
| A | TYR266 |
| A | CYS267 |
| A | VAL313 |
| site_id | AC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CL A 407 |
| Chain | Residue |
| A | ALA32 |
| A | HIS34 |
| A | LYS35 |
| site_id | AC8 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CL A 408 |
| Chain | Residue |
| A | LEU82 |
| A | ARG89 |
| site_id | AC9 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL A 409 |
| Chain | Residue |
| A | ASN294 |
| A | THR297 |
| A | ARG299 |
| A | HOH625 |
Functional Information from PROSITE/UniProt
| site_id | PS00522 |
| Number of Residues | 20 |
| Details | DNA_POLYMERASE_X DNA polymerase family X signature. GSFrRGaesSgDMDVLLthP |
| Chain | Residue | Details |
| A | GLY179-PRO198 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 9 |
| Details | Region: {"description":"DNA-binding"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 1 |
| Details | Active site: {"description":"Nucleophile; Schiff-base intermediate with DNA; for 5'-dRP lyase activity","evidences":[{"source":"PubMed","id":"9572863","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 6 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"12517346","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"8841120","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9287163","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1BPX","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1BPZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1MQ3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1ZQO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1ZQQ","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 3 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"8841119","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8ICW","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8ICX","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8ICY","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 1 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"8841119","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8ICX","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 3 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"9287163","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1BPY","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI7 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"UniProtKB","id":"Q8K409","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI8 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"Omega-N-methylarginine; by PRMT6","evidences":[{"source":"PubMed","id":"16600869","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI9 |
| Number of Residues | 4 |
| Details | Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"19713937","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"21362556","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
