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. 2024 Jun 20;14:14253. doi: 10.1038/s41598-024-64868-x

Table 1.

Cryo-EM refinement parameters and model validation.

FA CHI FA-CP CHI FA-CP POST
Map refinement
 Number of particles 178 679 303 005 40 800
 Map resolution, half-map FSC0.143 [Å] 2.49 2.02 2.44
Model statistics
Model composition
 Total non-hydrogen atoms 146 593 149 701 149 413
 RNA residues 4585 4585 4645
 Protein residues 6091 6091 6103
 Waters 0 3169 1619
 Mg ions 169 169 145
General
 Map-model FSC0.5 [Å] 2.5 2 2.4
 Map-model CCmask 0.89 0.88 0.9
 MolProbity score 1.25 1.26 1.26
 Clash score 2.89 3.46 2.82
 RMSD bond length [Å] 0.005 0.004 0.006
 RMSD bond angles [°] 0.633 0.632 0.682
 Mean B-factor (protein/nucleotide/ligand/water) 70.7/74.1/51.2/- 40.9/35.1/19.7/8.4 56.9/61.8/40.8/38.9
Protein geometry
 Rotamer outliers [%] 1.05 0.99 1.24
 Cß deviations > 0.25 Å [%] 0 0 0
 Ramachandran [%] (Fav./Allow./Outl.) 97.1/2.9/0.02 97.3/2.7/0.02 97.4/2.6/0.03
 Rama-Z (whole/helix/sheet/loop) 0.05/0.88/-0.20/-0.38 0.78/1.80/-0.12/-0.04 0.76/1.74/-0.17/0.00
 CaBLAM [%] (Outl./Disf.) 0.98/5.14 0.92/5.31 1.00/5.07
 CA Geometry outliers [%] 0.46 0.49 0.51
 EMRinger score 4.21 5.48 4.32
Nucleic acid geometry
 Backbone bond length outliers [%] 0 0 0
 Backbone bond angle outliers [%] 0 0 0
 Sugar puckers outliers [%] 0.48 0.50 0.43
 Backbone bond torsion suite outliers [%] 11.9 11.9 12.8