8D9D image
Deposition Date 2022-06-09
Release Date 2023-04-19
Last Version Date 2024-06-12
Entry Detail
PDB ID:
8D9D
Keywords:
REPLICATION
Title:
Human DNA polymerase-alpha/primase elongation complex II bound to primer/template
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Escherichia coli 'BL21-Gold(DE3)pLysS AG'
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.59 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
8D9D validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA primase small subunit
Gene (Uniprot):PRIM1
Chain IDs:A
Chain Length:420
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P49642 Pfam ID:PF01896 EC:2.7.7.102
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA primase large subunit
Gene (Uniprot):PRIM2
Chain IDs:B
Chain Length:509
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P49643 Pfam ID:PF04104 EC:2.7.7.102
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA polymerase alpha catalytic subunit
Gene (Uniprot):POLA1
Chain IDs:C
Chain Length:1462
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P09884 Pfam ID:PF12254, PF03104, PF00136, PF08996 EC:2.7.7.102
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA polymerase alpha subunit B
Gene (Uniprot):POLA2
Chain IDs:D
Chain Length:444
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q14181 Pfam ID:PF22062, PF04042
Polymer Type:polydeoxyribonucleotide/polyribonucleotide hybrid
Molecule:DNA/RNA (5'-D(*(GTP))-R(P*GP*CP*GP*GP*CP*AP*CP*G)-D(P*AP*CP*C)-3')
Chain IDs:E
Chain Length:12
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(*AP*TP*GP*GP*TP*CP*GP*TP*GP*CP*CP*GP*CP*CP*AP*AP*TP*AP*A)-3')
Chain IDs:F
Chain Length:19
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
DTP
MG
SF4
ZN
Primary Citation
Structures of human primosome elongation complexes.
Nat.Struct.Mol.Biol. 30 579 583 (2023)
PMID: 37069376 DOI: 10.1038/s41594-023-00971-3

Abstact

The synthesis of RNA-DNA primer by primosome requires coordination between primase and DNA polymerase α subunits, which is accompanied by unknown architectural rearrangements of multiple domains. Using cryogenic electron microscopy, we solved a 3.6 Å human primosome structure caught at an early stage of RNA primer elongation with deoxynucleotides. The structure confirms a long-standing role of primase large subunit and reveals new insights into how primosome is limited to synthesizing short RNA-DNA primers.

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Disease

Primary Citation of related structures
8D96