2025-06-04 REL PDBe PDBe PDBe 2024-04-15 2025-06-04 2025-06-04 2025-06-04 Wellcome Trust United Kingdom Initial 3D Map of relaxosome complex with oriT DNA ss-27_+8ds+9_+143 Williams SM Waksman G Relaxosome, Bacterial Conjugation, DNA processing, Relaxase, DNA binding proteins, DNA BINDING PROTEIN Williams SM Raffl S Kienesberger S Ilangovan A Zechner EL Waksman G Cryo-EM Structure of the relaxosome, a complex essential for bacterial mating and the spread of antibiotic resistance genes. Nat Commun UK 16 4906 4906 2025 40425557 doi:10.1038/s41467-025-60116-6 2041-1723 Complex of the relaxosome containing oriT DNA, accessory proteins TraY and TraM, host protein IHF and relaxase TraI Complex of the relaxosome containing oriT DNA, accessory proteins TraY and TraM, host protein IHF and relaxase TraI 0 1 2 3 4 5 6 7 8 Escherichia coli K-12 singleParticle particle 7.5
20 mM Hepes pH 7.5, 100 mM NaCl
 Quantifoil R2/2 GOLD 200 GLOW DISCHARGE ETHANE 95 277 FEI VITROBOT MARK IV
The complex after assembly and gel filtration was subjected to glutaraldehyde cross-linking
 FEI TITAN KRIOS OTHER OTHER FIELD EMISSION GUN 300 1.5 2.7 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Bioquantum 20 GATAN K3 (6k x 4k) 50.0
Movies were collected in counting mode fractionated over 50 frames
 1 PHASE FLIPPING AND AMPLITUDE CORRECTION
CryoSPARC ab-initio
 3.81 FSC 0.143 CUT-OFF
A reconstruction resulting from initial processing of the cryoEM dataset showing order/disorder in the trans-esterase (TE) domain of TraI. In this initial 3D map of the relaxosome, TE domain is ordered as the oriT DNA (ss-27_+8ds+9_+143) used was conducive to dsDNA melting.
369134 MAXIMUM LIKELIHOOD
CryoSPARC ab-initio
 MAXIMUM LIKELIHOOD
Homogeneous refinement
 emd_50099.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 500 500 500 0 0 0 500 500 500 414.0 414.0 414.0 90.0 90.0 90.0 X Y Z -0.29850546 0.8627123 0.0015270595 0.023623915 0.828 0.828 0.828 0.13 AUTHOR 3D refinement map Unsharpened AB INITIO MODEL emd_50099_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 500 500 500 0 0 0 500 500 500 414.0 414.0 414.0 90.0 90.0 90.0 X Y Z -0.17190146 0.67017865 0.0015270575 0.022582702 0.828 0.828 0.828 AUTHOR 10 A low-pass filtered map emd_50099_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 500 500 500 0 0 0 500 500 500 414.0 414.0 414.0 90.0 90.0 90.0 X Y Z -0.581012 1.0233672 0.0013838246 0.07050969 0.828 0.828 0.828 AUTHOR Refinement map - Half-A emd_50099_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 500 500 500 0 0 0 500 500 500 414.0 414.0 414.0 90.0 90.0 90.0 X Y Z -0.5512165 1.0248926 0.0013794801 0.070461035 0.828 0.828 0.828 AUTHOR Refinement map - Half-B