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. 2018 Dec 17;116(5):1723–1732. doi: 10.1073/pnas.1817984116

Table 1.

Data collection and refinement statistics

PDB ID 6E7K
Wavelength, Å 1.000
Space group P21212
Unit cell, Å a = 101.9, b = 153.1, c = 95.7
Resolution range,* Å 95.80–2.80 (2.90–2.80)
Observed reflections 122,715
Unique reflections 37,662
Completeness, % 99.4 (99.7)
Redundancy 3.3 (3.2)
Rsym, % 7.4 (53.2)
Rpim, % 4.8 (35.7)
CC1/2 0.985 (0.728)
Overall <I/σ(I)> 13.5 (1.5)
Wilson B factor, Å2 79.7
Rcryst/Rfree,§ % 19.7/23.5
No. of protein, water, glycan, Ca2+ atoms 7,873, 16, 154, 2
Refined B factors for protein, water, glycan, Ca2+, Å2 110.7, 97.7, 148.3, 115.0
Ramachandran outliers, % 2.3
Bond lengths,# Å 0.010
Bond angles,# ° 1.433
*

Values in parentheses are for the highest resolution shell.

Rsym=|II|/I.

Rpim=1/n1(|II|/I), where I is the observed integrated intensity, <I> is the average integrated intensity obtained from multiple measurements, and the summation is over all observed reflections.

§

Rcryst=||Fo|k|Fc||/Fo. Fo and Fc are the observed and calculated structure factors, respectively, and k is a scaling factor. The summation is over all measurements. Rfree is calculated as Rcryst using 5% of the reflections chosen randomly and omitted from the refinement calculations. Model stereochemistry was analyzed using MolProbity (56, 57).

Several residues falling into the disallowed area of the Ramachandran plot were located in regions of strained geometry or in regions where the electron density is not well defined. For example, D33–I37 in the N terminus of LPL had relatively poor electron density; S73 is positioned in a tight loop connecting α1 and β2; S304 is flanked by disulfide bonds; M336 precedes a proline; N359–Q360 connects β2′ and β3′; and L453–Q454 is in a tight loop connecting β11′ and β12′.

#

Bond lengths and angles are root-mean-square deviations from ideal values.