Table 1. Data Collection and Refinement Statistics.
INPP5B | ||
---|---|---|
BiPh(3,3′,4,4′,5,5′)P6 | Bz(1,2,4,5)P4 | |
PDB ID | 5A7I | 5A7J |
Data Collection | ||
synchrotron | BESSY | BESSY |
beamline | BL14.1 | BL14.1 |
wavelength (Å) | 0.91841 | 0.91841 |
resolution range (Å) | 34.29–2.89 | 48.48–2.90 |
(outest shell) | (3.05–2.89) | (3.06–2.9) |
space group | P41212 | P21 |
unit-cell dimensions (Å) | a = 96.97 | a = 52.26 |
b = 96.97 | b = 94.44 | |
c = 152.14 | c = 78.31 | |
unit-cell angles (deg) | α = β = γ = 90 | α = γ = 90, β = 106.32 |
completeness (%) | 99.9 (100.0) | 99.7 (99.7) |
unique reflections | 16922 | 16223 |
mean (I)/SD (I)a | 21.2 (2.2) | 6.9 (2.3) |
redundancy | 7.0 (7.2) | 3.6 (3.6) |
Rmeas (%)b | 7.5 (90.7) | 19.4 (67.9) |
Refinement | ||
resolution range (Å) | 34.29–2.89 | 48.48–2.90 |
(outest shell) | (2.97–2.89) | (3.10–2.90) |
Rcryst (%)c | 19.8 (33.8) | 20.2 (21.9) |
Rfree (%)d | 22.3 (34.5) | 25.0 (31.0) |
Model Content | ||
protein atoms | 2545 | 4971 |
ligand atoms | 42 | 52 |
metal atoms | 1 | 0 |
water molecules | 28 | 76 |
others | 16 | 26 |
average B factors (Å2) | ||
protein atoms | 83.59 | 39.10 |
ligand atoms | 76.44 | 65.84 |
metal atoms | 66.37 | n.d. |
water molecules | 71.94 | 19.15 |
other atoms | 111.59 | 63.89 |
r.m.s.d. bonds (Å) | 0.007 | 0.008 |
r.m.s.d. angles (deg) | 1.191 | 1.000 |
Ramachandran plot (%)e | ||
(favored, outliers) | 95.82, 0.32 | 94.95, 0 |
Mean (I)/SD is the mean ratio for all reflections of ⟨Ih⟩/SD ⟨Ih⟩, where for each unique reflection h, ⟨Ih⟩ is the weighted mean of measured Ih, and SD ⟨Ih⟩ is the mean of estimated error SD(I).
Rmeas =
Rcryst = , where Fobs and Fcalc are the observed and calculated structure factors, respectively.
Rfree is the same as Rcryst but based on a subset of 5% (5.1% and 5.0% for INPP5B-BiPh(3,3′,4,4′,5,5′)P6 and INPP5B-Bz(1,2,4,5)P4, respectively) of reflections omitted during refinement.
Values were computed by Molprobity (ref (26)).