Table 1 Cryo-EM data collection, refinement, and validation statistics
From: A structural and dynamic model for the assembly of Replication Protein A on single-stranded DNA
ScRPA-dT100 (EMDB-4410) (PDB 6I52) | ||
|---|---|---|
Data collection and processing | Dataset 1 (WT) | Dataset 2 (S178D) |
Magnification | 130,000 | 130,000 |
Voltage (kV) | 300 | 300 |
Electron exposure (e-/Å2) | 49 | 50 |
Defocus range (μm) | −1 to −3.5 | −1 to −4 |
Pixel size (Å) | 1.055 | 1.06 |
Symmetry imposed | C1 | C1 |
Initial particle images (no.) | ~1,300,000 (Tri-C), ~200,000 (dimer) | |
Final particle images (no.) | 341,873 (Tri-C), 32,583 (dimer) | |
Map resolution (Å) | 4.7 (Tri-C), 7.5 (dimer) | |
FSC threshold | 0.143 | |
Map resolution range (Å) | 4.5–6 (Tri-C), 6–10 (Dimer) | |
Refinement | Tri-C | |
Initial model used (PDB code) | Homology model derived from 1l1o and 4gop | |
Model resolution (Å) | 4.7 | |
FSC threshold | 0.143 | |
Model resolution range (Å) | 4.5–6 | |
Map sharpening B factor (Å2) | −400 | |
Model composition | ||
Non-hydrogen atoms | 3856 | |
Protein residues | 3456 | |
Ligands | 400 | |
R.m.s. deviations | ||
Bond lengths (Å) | 0.28 | |
Bond angles (°) | 0.60 | |
Validation | ||
MolProbity score | 2.71 | |
Clashscore | 9.67 | |
Ramachandran plot | ||
Favored (%) | 87.7 | |
Allowed (%) | 11.4 | |
Disallowed (%) | 0.9 | |
