› 8qbl

Electron Microscopy
2.66Å resolution

Retron-Eco1 filament with inactive effector (E106A, 2 segments)

Released:
DOI: 10.2210/pdb8qbl/pdb
PDB entry 8qbl coloured by chain, front view.
PDB entry 8qbl coloured by chain, side view.
PDB entry 8qbl coloured by chain, top view.
Source organism: Escherichia coli BL21(DE3)
Primary publication:
Retron-Eco1 assembles NAD+-hydrolyzing filaments that provide immunity against bacteriophages.
Carabias A, Camara-Wilpert S, Mestre MR, Lopéz-Méndez B, Hendriks IA, Zhao R, Pape T, Fuglsang A, Luk SH, Nielsen ML, Pinilla-Redondo R, Montoya G
Mol Cell (2024)
PMID: 38788717
Related structures: EMD-18314

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero 29-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-270681 (preferred)
Entry contents:
2 distinct polypeptide molecules
1 distinct DNA molecule
2 distinct RNA molecules
Macromolecules (5 distinct):
Retron Ec86 reverse transcriptase Chains: A, I, K, P, U, Z
Molecule details ›
Chains: A, I, K, P, U, Z
Length: 349 amino acids
Theoretical weight: 39.98 KDa
Source organism: Escherichia coli BL21(DE3)
Expression system: Escherichia coli str. K-12 substr. MG1655
UniProt:
  • Canonical: P23070 (Residues: 1-320; Coverage: 100%)
Gene names: LM2_00877, ret
Sequence domains: Reverse transcriptase (RNA-dependent DNA polymerase)
Retron Ec86 putative ribosyltransferase/DNA-binding protein Chains: E, F, G, H, T
Molecule details ›
Chains: E, F, G, H, T
Length: 307 amino acids
Theoretical weight: 35.48 KDa
Source organism: Escherichia coli BL21(DE3)
Expression system: Escherichia coli str. K-12 substr. MG1655
UniProt:
  • Canonical: P0DV88 (Residues: 1-307; Coverage: 100%)
Gene name: LM2_00875
Retron-Eco1 msDNA Chains: B, J, L, Q, V, a
Molecule details ›
Chains: B, J, L, Q, V, a
Length: 85 nucleotides
Theoretical weight: 26.32 KDa
Retron-Eco1-msr Chains: C, M, O, R, W, b
Molecule details ›
Chains: C, M, O, R, W, b
Length: 82 nucleotides
Theoretical weight: 26.2 KDa
Retron-Eco1-A2 Chains: D, N, S, X, Y, c
Molecule details ›
Chains: D, N, S, X, Y, c
Length: 14 nucleotides
Theoretical weight: 4.54 KDa

Ligands and Environments

2 bound ligands:
Ligand MG 5 x MG
Ligand NAD 4 x NAD
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.66Å
Relevant EMDB volumes: EMD-18314
Expression system: Escherichia coli str. K-12 substr. MG1655

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