9QV9
apPol-DNA-nucleotide complex (ternary 3)
Summary for 9QV9
| Entry DOI | 10.2210/pdb9qv9/pdb |
| EMDB information | 53335 53391 |
| Descriptor | Plastid replication-repair enzyme, DNA primer strand, DNA template strand, ... (5 entities in total) |
| Functional Keywords | dna polymerase, replication |
| Biological source | Plasmodium falciparum (malaria parasite P. falciparum) More |
| Total number of polymer chains | 3 |
| Total formula weight | 95758.79 |
| Authors | |
| Primary citation | Kumari, A.,Enache, T.,Craggs, T.D.,Pata, J.D.,Lahiri, I. Structural basis of multitasking by the apicoplast DNA polymerase from Plasmodium falciparum. Nucleic Acids Res., 53:-, 2025 Cited by PubMed Abstract: Plasmodium falciparum is a eukaryotic pathogen responsible for the majority of malaria-related fatalities. Plasmodium belongs to the phylum Apicomplexa and, like most members of this phylum, contains a non-photosynthetic plastid called the apicoplast. The apicoplast has its own genome, replicated by a dedicated replisome. Unlike other cellular replisomes, the apicoplast replisome uses a single DNA polymerase (apPol). This suggests that apPol can multitask and catalyse both replicative and lesion bypass synthesis. Replicative synthesis relies on a restrictive active site for high accuracy while lesion bypass typically requires an open active site. This raises the question: how does apPol combine the structural features of multiple DNA polymerases in a single protein? Using single-particle electron cryomicroscopy (cryoEM), we have solved the structures of apPol bound to its undamaged DNA and nucleotide substrates in five pre-chemistry conformational states. We found that apPol can accommodate a nascent base pair with the fingers in an open configuration, which might facilitate the lesion bypass activity. In the fingers-open state, we identified a nascent base pair checkpoint that preferentially selects Watson-Crick base pairs, an essential requirement for replicative synthesis. Taken together, these structural features might explain how apPol balances replicative and lesion bypass synthesis. PubMed: 41099714DOI: 10.1093/nar/gkaf1005 PDB entries with the same primary citation |
| Experimental method | ELECTRON MICROSCOPY (3.5 Å) |
Structure validation
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