Table 1 Cryo-EM data collection, refinement and validation statistics

From: Structural landscape of activation, desensitization and inhibition in the human TRPM4 channel

 

Ca2+-PtdIns(4,5)P2 open

(EMD-48563), (PDB 9MRT)

Ca2+ putative desensitized

(EMD-48603), (PDB 9MT8)

Apo closed

(EMD-48604), (PDB 9MTA)

ATP-inhibited

(EMD-48605), (PDB 9MTC)

Data collection and processing

    

Magnification

165,000

165,000

165,000

105,000

Voltage (kV)

300

300

300

300

Electron exposure (e− per Å2)

60

60

60

60

Defocus range (μm)

−0.9 to −2.2

−0.9 to −2.2

−0.9 to −2.2

−0.9 to −2.2

Pixel size (Ã…)

0.738

0.738

0.738

0.775

Symmetry imposed

C4

C4

C4

C4

Initial particle images (no.)

1,491,638

1,491,638

1,491,638

4,103,287

Final particle images (no.)

32,765

57,360

78,427

153,652

Map resolution (Ã…)

2.44

3.19

2.78

2.63

 FSC threshold: 0.143

    

Refinement

    

Model resolution (Ã…)

 FSC threshold: 0.143

2.44

3.18

2.78

2.64

Map sharpening B factor (Ã…2)

−54.8

−89.6

−82.0

−86.3

Model composition

    

 Nonhydrogen atoms

30,544

27,192

31,232

30,964

 Protein residues

3,804

3,420

3,924

3,876

 Ligands

Ca2+: 8, PtdIns(4,5)P2: 4

Ca2+: 4

-

ATP: 4

B factors (Ã…2)

    

 Protein

85.41

95.81

92.17

53.54

 Ligand

57.74

43.90

-

64.80

Root-mean-square deviations

    

 Bond lengths (Å)

0.003

0.003

0.002

0.003

 Bond angles (°)

0.510

0.450

0.435

0.497

Validation

    

 MolProbity score

1.01

1.30

1.03

1.47

 Clashscore

2.33

4.09

2.45

3.86

 Poor rotamers (%)

0.87

1.39

0.48

1.83

Ramachandran plot

    

 Favored (%)

98.92

98.59

98.47

97.56

 Allowed (%)

1.08

1.41

1.53

2.44

 Disallowed (%)

0

0

0

0