3PML
crystal structure of a polymerase lambda variant with a dGTP analog opposite a templating T
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003677 | molecular_function | DNA binding |
| A | 0003887 | molecular_function | DNA-directed DNA polymerase activity |
| A | 0006281 | biological_process | DNA repair |
| A | 0016779 | molecular_function | nucleotidyltransferase activity |
| A | 0034061 | molecular_function | DNA polymerase activity |
| B | 0003677 | molecular_function | DNA binding |
| B | 0003887 | molecular_function | DNA-directed DNA polymerase activity |
| B | 0006281 | biological_process | DNA repair |
| B | 0016779 | molecular_function | nucleotidyltransferase activity |
| B | 0034061 | molecular_function | DNA polymerase activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 22 |
| Details | BINDING SITE FOR RESIDUE 1GC A 701 |
| Chain | Residue |
| A | MG1 |
| A | GLY426 |
| A | ASP427 |
| A | ASP429 |
| A | TYR505 |
| A | PHE506 |
| A | THR507 |
| A | GLY508 |
| A | ASN513 |
| A | ARG517 |
| C | DT5 |
| A | MG2 |
| C | DG6 |
| H | DC6 |
| H | HOH12 |
| A | HOH42 |
| A | HOH55 |
| A | ARG386 |
| A | GLY416 |
| A | SER417 |
| A | ARG420 |
| A | CYS425 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG A 1 |
| Chain | Residue |
| A | MG2 |
| A | HOH42 |
| A | ASP427 |
| A | ASP429 |
| A | 1GC701 |
| site_id | AC3 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE MG A 2 |
| Chain | Residue |
| A | MG1 |
| A | ASP427 |
| A | ASP429 |
| A | ASP490 |
| A | 1GC701 |
| H | DC6 |
| H | HOH12 |
| site_id | AC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE NA A 5 |
| Chain | Residue |
| A | SER339 |
| A | ILE341 |
| A | ALA344 |
| H | DA5 |
| H | HOH29 |
| site_id | AC5 |
| Number of Residues | 20 |
| Details | BINDING SITE FOR RESIDUE 1GC B 702 |
| Chain | Residue |
| B | MG3 |
| B | MG4 |
| B | HOH117 |
| B | HOH136 |
| B | ARG386 |
| B | GLY416 |
| B | SER417 |
| B | ARG420 |
| B | GLY426 |
| B | ASP427 |
| B | ASP429 |
| B | TYR505 |
| B | PHE506 |
| B | THR507 |
| B | GLY508 |
| B | ALA510 |
| B | ASN513 |
| B | ARG517 |
| E | DT5 |
| F | DC6 |
| site_id | AC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE MG B 3 |
| Chain | Residue |
| B | HOH116 |
| B | ASP427 |
| B | ASP429 |
| B | 1GC702 |
| site_id | AC7 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG B 4 |
| Chain | Residue |
| B | HOH117 |
| B | ASP427 |
| B | ASP429 |
| B | ASP490 |
| B | 1GC702 |
| F | DC6 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE NA B 6 |
| Chain | Residue |
| B | HOH15 |
| B | SER339 |
| B | ILE341 |
| B | ALA344 |
| F | DA5 |
| site_id | AC9 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE NA B 7 |
| Chain | Residue |
| A | LYS307 |
| B | HOH135 |
| B | CYS300 |
| B | ILE302 |
| B | ILE305 |
| G | DC3 |
Functional Information from PROSITE/UniProt
| site_id | PS00522 |
| Number of Residues | 20 |
| Details | DNA_POLYMERASE_X DNA polymerase family X signature. GSYrRGkatCgDVDVLIthP |
| Chain | Residue | Details |
| A | GLY416-PRO435 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 34 |
| Details | Region: {"description":"DNA-binding","evidences":[{"source":"PubMed","id":"14992725","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 18 |
| Details | Region: {"description":"Involved in primer binding","evidences":[{"evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | Active site: {"description":"Schiff-base intermediate with DNA","evidences":[{"source":"PubMed","id":"11457865","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 16 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"17475573","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2PFP","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2PFQ","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 6 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"17475573","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2PFO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2PFQ","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
