Table 1

FSC of Selected Proteins

length (aa)

Number of Sequences

Null State (Bits)

FSC (Fits)

FSC Density Fits/aa


Ankyrin

33

1,171

143

46

1.4

HTH 8

41

1,610

177

76

1.9

HTH 7

45

503

194

83

1.8

HTH 5

47

1,317

203

80

1.7

HTH 11

53

663

229

80

1.5

HTH 3

55

3,319

238

80

1.5

Insulin

65

419

281

156

2.4

Ubiquitin

65

2,442

281

174

2.7

Kringle domain

75

601

324

173

2.3

Phage Integr N-dom

80

785

346

123

1.5

VPR

82

2,372

359

308

3.7

RVP

95

51

411

172

1.8

Acyl-Coa dh N-dom

103

1,684

445

174

1.7

MMR HSR1

119

792

514

179

1.5

Ribosomal S12

121

603

523

359

3.0

FtsH

133

456

575

216

1.6

Ribosomal S7

149

535

644

359

2.4

P53 DNA domain

157

156

679

525

3.3

Vif

190

1,982

821

675

3.6

SRP54

196

835

847

445

2.3

Ribosomal S2

197

605

851

462

2.4

Viral helicase1

229

904

990

335

1.5

Beta-lactamase

239

1,785

1,033

336

1.4

RecA

240

1,553

1,037

832

3.5

Bac luciferase

272

1,900

1,176

357

1.3

tRNA-synt 1b

280

865

1,210

438

1.6

SecY

342

469

1,478

688

2.0

EPSP Synthase

372

1,001

1,608

688

1.9

FTHFS

390

658

1,686

1,144

2.9

DctM

407

682

1,759

724

1.8

Corona S2

445

836

1,923

1,285

2.9

Flu PB2

608

1,692

2,628

2,416

4.0

Usher

724

316

3,129

1,296

1.8

Paramyx RNA Pol

887

389

3,834

1,886

2.1

ACR Tran

949

1,141

4,102

1,650

1.7

Random sequences

1000

500

4,321

0

0

50-mer polyadenosine

50

1

0

0

0


Results for 35 protein families Shown above are the 35 protein families analyzed, their sequence length (column 1), the number of sequences analyzed for each family (column 2), the Shannon uncertainty of the Null State Hø (Eqn. 4) for each protein (column 3), the FSC value ζ in Fits for each protein (column 4), and the average Fit value/site (FSC/length, column 5). For comparison, the results for a set of uniformly random amino acid sequences (RSC) are shown in the second from last row, and a highly ordered, 50-mer polyadenosine sequence (OSC) in the last row. All values, except for the OSC example, which was calculated from the constrained ground state required to produce OSC, were computed from the null state. The Fit values obtained can be discussed as the measure of the change in functional uncertainty required to specify any functional sequence that falls into the given family being analyzed.

Durston et al. Theoretical Biology and Medical Modelling 2007 4:47   doi:10.1186/1742-4682-4-47

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