Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Cryo-EM Structure of the relaxosome, a complex essential for bacterial mating and the spread of antibiotic resistance genes.
Journal, issue, pages	Nat Commun, Vol. 16, Issue 1, Page 4906, Year 2025
Publish date	May 27, 2025
Authors	Sunanda M Williams / Sandra Raffl / Sabine Kienesberger / Aravindan Ilangovan / Ellen L Zechner / Gabriel Waksman /
PubMed Abstract	Bacterial mating, or conjugation, was discovered nearly 80 years ago as a process transferring genes from one bacterial cell (the donor) to another (the recipient). It requires three key multiprotein ...Bacterial mating, or conjugation, was discovered nearly 80 years ago as a process transferring genes from one bacterial cell (the donor) to another (the recipient). It requires three key multiprotein complexes in the donor cell: a DNA-processing machinery called the relaxosome, a double-membrane spanning type 4 secretion system (T4SS), and an extracellular appendage termed pilus. While the near-atomic resolution structures of the T4SS and pilus are already known, that of the relaxosome has not been reported to date. Here, we describe the cryo-EM structure of the fully assembled relaxosome encoded by the paradigm F plasmid in two different states corresponding to distinct functional steps along the DNA processing reaction. By varying the structures of model DNAs we delineate conformational changes required to initiate conjugation. Mutational studies of the various protein-protein and protein-DNA interaction hubs suggest a complex sensitive to trigger signals, that could arise from cell-to-cell contacts with recipient cells.
External links	Nat Commun / PubMed:40425557 / PubMed Central
Methods	EM (single particle)
Resolution	2.94 - 7.7 Å
Structure data	EMDB-50098: Initial 3D Map of relaxosome complex with oriT DNA ds-27_+143 Method: EM (single particle) / Resolution: 6.34 Å EMDB-50099: Initial 3D Map of relaxosome complex with oriT DNA ss-27_+8ds+9_+143 Method: EM (single particle) / Resolution: 3.81 Å EMDB-50102: Initial 3D Map of relaxosome complex with oriT DNA ss-27_-8ds-7_+143 Method: EM (single particle) / Resolution: 7.7 Å EMDB-50103: Initial 3D Map of relaxosome complex with oriT DNA ss-27_-13ds-12_+143 Method: EM (single particle) / Resolution: 6.5 Å EMDB-50104: Initial 3D Map of relaxosome complex with oriT DNA ds-2_+113deltaTraM Method: EM (single particle) / Resolution: 6.14 Å EMDB-50105: Initial 3D Map of relaxosome complex with oriT DNA ds-67_+113(poly-dT15-17_-3)deltaTraM Method: EM (single particle) / Resolution: 4.43 Å 50117 9f0x EMDB-50117: CryoEM map of the F plasmid relaxosome in its pre-initiation state. ds-27_+143-R Locally-refined Map 3.76 A PDB-9f0x: CryoEM structure of the F plasmid relaxosome in its pre-initiation state, derived from the ds-27_+143-R Locally-refined Map 3.76 A Method: EM (single particle) / Resolution: 3.78 Å 50118 9f0y EMDB-50118, PDB-9f0y: CryoEM map of the F plasmid relaxosome with TraI in its TE mode. ss-27_+8ds+9_+143-R Locally-refined 3.45 A Map Method: EM (single particle) / Resolution: 3.45 Å 50119 9f0z EMDB-50119: CryoEM map of the F plasmid relaxosome with truncated TraI1-863 in its TE mode. ss-27_+8ds+9_+143-R_deltaAH+CTD Locally-refined 3.42 A Map PDB-9f0z: CryoEM structure of the F plasmid relaxosome with truncated TraI1-863 in its TE mode, derived from the ss-27_+8ds+9_+143-R_deltaAH+CTD Locally-refined 3.42 A Map Method: EM (single particle) / Resolution: 3.42 Å 50120 9f10 EMDB-50120: CryoEM map of the F plasmid relaxosome with TraI in its TE mode, without accessory protein TraM. ss-27_+8ds+9_+143-R_deltaTraM Locally-refined 2.94 A Map. PDB-9f10: CryoEM structure of the F plasmid relaxosome with TraI in its TE mode, without accessory protein TraM. Derived from the ss-27_+8ds+9_+143-R_deltaTraM Locally-refined 2.94 A Map. Method: EM (single particle) / Resolution: 2.94 Å 50121 9f11 EMDB-50121: CryoEM map of the F plasmid relaxosome with oriT DNA ss-27_+3ds+4_+143 and TraI in its TE mode. ss-27_+3ds+4_+143-R Locally-refined 3.68 A Map. PDB-9f11: CryoEM structure of the F plasmid relaxosome with oriT DNA ss-27_+3ds+4_+143 and TraI its TE mode, derived from ss-27_+3ds+4_+143-R Locally-refined 3.68 A Map. Method: EM (single particle) / Resolution: 3.68 Å 50122 9f12 EMDB-50122: CryoEM map of the F plasmid relaxosome with oriT DNA ss-27_-3ds-2_+143 and TraI in its TE mode. ss-27_-3ds-2_+143-R Locally-refined 3.42 A Map. PDB-9f12: CryoEM structure of the F plasmid relaxosome with oriT DNA ss-27_-3ds-2_+143 and TraI its TE mode, derived from ss-27_-3ds-2_+143-R Locally-refined 3.42 A Map. Method: EM (single particle) / Resolution: 3.42 Å EMDB-50131: CryoEM map of the F plasmid relaxosome in its pre-initiation state. ds-27_+143-R Global Map 4.31 A. Method: EM (single particle) / Resolution: 4.31 Å EMDB-50132: CryoEM map of the F plasmid relaxosome with truncated TraI1-863 in its TE mode. ss-27_+8ds+9_+143-R_deltaAH+CTD Global 3.93 A Map. Method: EM (single particle) / Resolution: 3.93 Å EMDB-50133: CryoEM map of the F plasmid relaxosome with TraI in its TE mode, without the accessory protein TraM. ss-27_+8ds+9_+143-R_deltaTraM Global 3.11 A Map. Method: EM (single particle) / Resolution: 3.11 Å EMDB-53548: CryoEM map of the F plasmid relaxosome with TraI in its TE mode. ss-27_+8ds+9_+143-R Global 3.77 A Map. Method: EM (single particle) / Resolution: 3.77 Å
Chemicals	ChemComp-MG: Unknown entry
Source	escherichia coli k-12 (bacteria)
Keywords	DNA BINDING PROTEIN / Relaxosome / Bacterial Conjugation / DNA processing / Relaxase / DNA binding proteins