Table 1 Summary of crystallographic structure determination statistics

From: Classification of the human phox homology (PX) domains based on their phosphoinositide binding specificities

 

SNX32 PX domain-IncE

SGK3 PX domain

SNX23 PX domain

SNX15 PX domain (form 1)

SNX15 PX domain (form 2)

PDB ID

6E8R

6EDX

6EE0

6ECM

6MBI

Data collection

 Space group

I121

I4

P1211

P43212

P43212

Cell dimensions

  a, b, c (Å)

90.8, 46.0, 134.2

74.3, 74.3, 52.0

46.8, 92.8, 47.0

54.5, 54.5, 83.6

60.3, 60.3, 85.2

  α, β, γ (°)

90, 105.6, 90

90.0, 90.0, 90.0

90.0, 91.3, 90.0

90.0, 90,0, 90.0

90.0, 90,0, 90.0

 Resolution (Å)

43.76–2.26 (2.34–2.27)

42.59–2.009 (2.06–2.01)

47.03–2.52 (2.62– 2.52)

45.65–2.35 (2.43–2.35)

49.22–2.83 (2.98–2.83)

 Rmerge

0.151 (0.894)

0.122 (0.181)

0.062 (0.684)

0.076 (1.074)

0.094 (0.728)

 Rpim

0.063 (0.540)

0.035 (0.051)

0.039 (0.428)

0.015 (0.216)

0.028 (0.210)

 < I > / σI

10.7 (2.5)

13.9 (9.1)

8.8 (1.3)

20.9 (3.1)

14.4 (2.6)

 Total observations

187434 (15896)

126993 (9306)

46543 (5123)

147768 (12430)

50092 (7141)

 Unique observations

25107 (2222)

9533 (682)

13562 (1488)

5645 (505)

4100 (565)

 Completeness (%)

99.7 (97)

99.9 (99.3)

99.0 (96.7)

99.4 (94.3)

99.4 (96.2)

 Multiplicity

7.5 (7.2)

13.3 (13.6)

3.4 (3.4)

26.2 (24.6)

12.2 (12.6)

 Half-set correlation (CC(1/2))

0.996 (0.726)

0.997 (0.990)

0.998 (0.706)

1.000 (0.982)

0.999 (0.960)

Refinement

 Rwork/Rfree

0.186/0.238

0.187/0.213

0.175/0.247

0.244/0.299

0.280/0.314

No. of atoms

  Protein

2676

961

6584

834

860

  Solvent

57

22

22

9

2

 Average B-factor (Å2)

26.3

27.1

80.7

79.0

103.7

R.m.s deviations

  Bond lengths (Å)

0.017

0.008

0.010

0.006

0.002

  Bond angles (°)

1.312

0.980

1.520

1.036

0.536

Ramachandran plot (%)

  Favored

97.0

97.0

97.0

98.0

90.0

  Allowed

2.7

3.0

2.2

1.0

9

  Outliers (%)

0.3

0

0.8

1.0

1.0

  Clash score

8

5

8

1

1