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Table 5 The robust solution S18 with a set of m=22 features for DNAset

From: Predicting and analyzing DNA-binding domains using a systematic approach to identifying a set of informative physicochemical and biochemical properties

Feature ID

AAindex ID

Description

53

CHOP780216

Normalized frequency of the 2nd and 3rd residues in turn (Chou-Fasman, 1978b)

56

CIDH920103

Normalized hydrophobicity scales for alpha+beta-proteins (Cid et al., 1992)

64

DAYM780101

Amino acid composition (Dayhoff et al., 1978a)

86

FAUJ880109

Number of hydrogen bond donors (Fauchere et al., 1988)

91

FINA770101

Helix-coil equilibrium constant (Finkelstein-Ptitsyn, 1977)

188

NAGK730103

Normalized frequency of coil (Nagano, 1973)

202

NAKH920101

AA composition of CYT of single-spanning proteins (Nakashima-Nishikawa, 1992)

227

PALJ810105

Normalized frequency of turn from LG (Palau et al., 1981)

228

PALJ810106

Normalized frequency of turn from CF (Palau et al., 1981)

255

PRAM900104

Relative frequency in reverse-turn (Prabhakaran, 1990)

262

QIAN880105

Weights for alpha-helix at the window position of -2 (Qian-Sejnowski, 1988)

274

QIAN880117

Weights for beta-sheet at the window position of -3 (Qian-Sejnowski, 1988)

286

QIAN880129

Weights for coil at the window position of -4 (Qian-Sejnowski, 1988)

363

SUEM840101

Zimm-Bragg parameter s at 20 C (Sueki et al., 1984)

383

WEBA780101

RF value in high salt chromatography (Weber-Lacey, 1978)

388

WOEC730101

Polar requirement (Woese, 1973)

412

AURR980110

Normalized positional residue frequency at helix termini N5 (Aurora-Rose, 1998)

430

MUNV940102

Free energy in alpha-helical region (Munoz-Serrano, 1994)

434

WIMW960101

Free energies of transfer of AcWl-X-LL peptides from bilayer interface to water (Wimley-White, 1996)

443

KUMS000104

Distribution of amino acid residues in the alpha-helices in mesophilic proteins (Kumar et al., 2000)

486

BASU050102

Interactivity scale obtained by maximizing the mean of correlation coefficient over single-domain globular proteins (Bastolla et al., 2005)

513

JACR890101

Weights from the IFH scale (Jacobs-White, 1989)