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. Author manuscript; available in PMC: 2020 May 7.
Published in final edited form as: Structure. 2019 Mar 21;27(5):794–805.e4. doi: 10.1016/j.str.2019.03.002

Table 1.

Diffraction Data, Phasing Statistics, and Model Refinement

SeMet Combined Dataset 1a SeMet Combined Dataset 2b Nativec
Space group P6122 P6122 P6122
Cell dimensions
 a, b, c (Å) 119.27, 119.27, 551.68 119.39, 119.39, 551.86 119.34, 119.34, 551.98
 α, β, γ (°) 90, 90, 120 90, 90, 120 90, 90, 120
Mosaicity (°) 0.44 0.46 0.49
overall highest shell overall highest shell overall highest shell
Wavelength (Å) 0.97918 0.97918 0.97918
Beam/detector 24-ID-C Pilatus 6M-F 24-ID-C Pilatus 6M-F 24-ID-E Eiger 16M
Observations 3,925,944 104,010 5,907,898 227,087 770,154 50,223
Unique reflections 69,991 4,232 68,911 2,776 48,607 4,315
Resolution (Å) 62.66–2.64 2.7–2.64 68.72–2.59 2.65–2.59 96.79–2.99 3.09–2.99
Rmerged 0.414 6.203 0.251 1.655 0.326 2.76
Rmease 0.418 6.334 0.253 1.666 0.336 2.89
Rpimf 0.058 1.27 0.027 0.18 0.083 0.83
I/σ(I) 12.5 1.1 22.9 5.6 9.6 1.1
CC1/2 0.994 0.251 0.998 0.646 0.983 0.224
Completeness 99.7 95.6 93.7 60.5 100 99.9
Multiplicity 56.1 24.6 85.7 81.8 15.8 11.6
Refinement PDB: ID 6MO6 PDB: ID 6MP5
Rwork/Rfree 0.187/0.245 0.208/0.264
No. of atoms
 Overall 13,533 13,260
 Protein 13,040 13,020
 Ligands 216 212
 Waters 277 28
RMSD from ideality
 Bonds (Å) 0.004 0.003
 Angles (°) 0.98 0.605
B factors (Å2)
 Mean 39.6 69.2
 Protein 39.7 69.4
 Ligands 33.9 61.1
 Waters 35.8 54.1
a

SeMet combined dataset 1 was produced by combining datasets collected with two crystals of SeMet-substituted enzyme, crystal A and crystal B, at a detector distance of 400 and 440 mm, respectively. Crystal A was grown using the condition 20% glycerol, 7.8% PEG 4K, 0.1 M sodium acetate trihydrate pH 4.6, 0.32 M ammonium acetate, 0.1% DHPC, 0.31 mM DCQ, and 10 mM N-ethylmaleimide. Crystal B was grown using the condition 20% glycerol, 8.2% PEG 4K, 0.1 M sodium acetate trihydrate pH 4.6, 0.32 M ammonium acetate, 0.1% DHPC, 0.31 mM DCQ, and 10 mM thiosulfate pentahydrate.

b

SeMet combined dataset 2 was produced by combining two datasets collected from different positions within with crystal B.

c

Native dataset was collected at a detector distance of 500 mm from a single crystal of native enzyme grown in 10% glycerol, 14% PEG 4K, 0.1 M sodium acetate trihydrate pH 4.6, 0.5 M ammonium acetate, and 0.1% DHPC.

d

Rmerge = ΣhklΣi|Ihk,i − 〈Ihkl〉|/ΣhklIhkl〉.

e

Rmeas = Σhkl[N/(−1)]½ Σi|Ii(hkl) − 〈I(hkl)〉|/Σhkl Σi Ii(hkl).

f

Rp.i.m. = Σhkl[1/(−1)]½ Σi|Ii(hkl) − 〈I(hkl)〉|/Σhkl Σi Ii(hkl).