Skip to main content
. 2019 Feb 11;75(Pt 2):192–199. doi: 10.1107/S2059798319002031

Table 4. Data, phasing and structure-refinement statistics of concanavalin A.

Data collection
 Space group I222
 Unit-cell parameters 61.6, 85.6, 88.8
 Resolution (Å) 42.83–1.929 (1.998–1.929)
Phasing statistics
 Best SHELXE CC of partial model 37.96
 Average fragment size 21
 Best MPE against partially refined model 64
Refinement statistics  
R factor (%) 0.15
R free (%) 0.184
 Cruickshank’s DPI for coordinate error§ based on R factor (Å) 0.14
 Wilson plot B factor (Å2) 17.2
 Average all-atom B factor (Å2) 19.8
 R.m.s.d., bonds (Å) 0.004
 R.m.s.d., angles (Å) 1.07
 Total No. of non-H atoms 2076
 Total No. of water molecules 260
 Solvent content (%) 46.4
 Matthews coefficient (Å3 Da−1) 2.3
Ramachandran plot
 Favoured region (%) 97.45
 Allowed region (%) 2.13
 Outliers (%) 0.43

Values in parentheses are for the highest resolution bin.

R free is calculated using 5% of the total reflections that were randomly selected and excluded from refinement.

§

DPI = [N atoms/(N reflN params)]1/2 RD max C −1/3, where N atoms is the number of atoms included in the refinement, N refl is the number of reflections included in the refinement, R is the R factor, D max is the maximum resolution of the reflections included in the refinement, C is the completeness of the observed data and, for isotropic refinement, N params ≃ 4N atoms (Cruickshank, 1999).

Calculated with PHENIX (Adams et al., 2010).