aaanalysis.load_features

class aaanalysis.load_features(name='DOM_GSEC')[source]

Bases:

Load feature sets for protein benchmarking datasets.

Features are only provided for in-depth analyzed datasets available from the load_dataset() function. These are as follows:

Added in version 0.1.3.

Parameters:

name (str, default='DOM_GSEC') – The name of the dataset for which features are loaded.

Returns:

df_feat – A DataFrame with features and their statistical measures as provided CPP.run() method, including their feature importance.

Return type:

pd.DataFrame, shape (n_features, n_feature_info)

Examples

You can load features corresponding to a specific dataset using the load_feature() function:

import aaanalysis as aa
df_feat = aa.load_features(name="DOM_GSEC")
aa.display_df(df_feat, show_shape=True)

DataFrame shape: (150, 15)
  feature category subcategory scale_name scale_description abs_auc abs_mean_dif mean_dif std_test std_ref p_val_mann_whitney p_val_fdr_bh positions feat_importance feat_importance_std
1 TMD_C_JMD_C-Seg...3,4)-KLEP840101 Energy Charge Charge Net charge (Kle...n et al., 1984) 0.244000 0.103666 0.103666 0.106692 0.110506 0.000000 0.000000 31,32,33,34,35 0.970400 1.438918
2 TMD_C_JMD_C-Seg...3,4)-FINA910104 Conformation α-helix (C-cap) α-helix termination Helix terminati...n et al., 1991) 0.243000 0.085064 0.085064 0.098774 0.096946 0.000000 0.000000 31,32,33,34,35 0.000000 0.000000
3 TMD_C_JMD_C-Seg...6,9)-LEVM760105 Shape Side chain length Side chain length Radius of gyrat... (Levitt, 1976) 0.233000 0.137044 0.137044 0.161683 0.176964 0.000000 0.000001 32,33 1.554800 2.109848
4 TMD_C_JMD_C-Seg...3,4)-HUTJ700102 Energy Entropy Entropy Absolute entrop...Hutchens, 1970) 0.229000 0.098224 0.098224 0.106865 0.124608 0.000000 0.000001 31,32,33,34,35 3.111200 3.109955
5 TMD_C_JMD_C-Seg...6,9)-RADA880106 ASA/Volume Volume Accessible surface area (ASA) Accessible surf...olfenden, 1988) 0.223000 0.095071 0.095071 0.114758 0.132829 0.000000 0.000002 32,33 0.000000 0.000000
6 TMD_C_JMD_C-Seg...2,3)-KLEP840101 Energy Charge Charge Net charge (Kle...n et al., 1984) 0.222000 0.058671 0.058671 0.064895 0.069547 0.000000 0.000001 27,28,29,30,31,32,33 0.000000 0.000000
7 TMD_C_JMD_C-Seg...4,5)-FAUJ880109 Energy Isoelectric point Number hydrogen bond donors Number of hydro...e et al., 1988) 0.215000 0.146661 0.146661 0.174609 0.188034 0.000000 0.000004 33,34,35,36 1.032400 1.510722
8 TMD_C_JMD_C-Seg...3,4)-JANJ780101 ASA/Volume Accessible surface area (ASA) ASA (folded protein) Average accessi...n et al., 1978) 0.215000 0.124317 0.124317 0.166309 0.153364 0.000000 0.000004 31,32,33,34,35 1.080400 1.296094
9 TMD_C_JMD_C-Seg...,10)-WILM950103 Polarity Hydrophobicity (interface) Hydrophobicity (interface) Hydrophobicity ...e et al., 1995) 0.212000 0.141305 -0.141305 0.168603 0.217235 0.000000 0.000005 33,34 1.747200 2.150664
10 TMD_C_JMD_C-Seg...6,9)-AURR980110 Conformation α-helix α-helix (middle) Normalized posi...ora-Rose, 1998) 0.211000 0.125350 0.125350 0.160819 0.174121 0.000000 0.000005 32,33 1.788800 2.700803
11 TMD_C_JMD_C-Seg...2,3)-AURR980110 Conformation α-helix α-helix (middle) Normalized posi...ora-Rose, 1998) 0.211000 0.077355 0.077355 0.102965 0.107453 0.000000 0.000005 27,28,29,30,31,32,33 3.048800 3.623912
12 TMD_C_JMD_C-Seg...3,4)-JANJ790102 Energy Free energy (unfolding) Transfer free e...(TFE) to inside Transfer free e...y (Janin, 1979) 0.206000 0.111462 -0.111462 0.159718 0.144989 0.000000 0.000009 31,32,33,34,35 0.000000 0.000000
13 TMD_C_JMD_C-Seg...6,9)-CHOC760103 ASA/Volume Buried Buried Proportion of r...(Chothia, 1976) 0.205000 0.125868 -0.125868 0.172165 0.188333 0.000000 0.000009 32,33 0.000000 0.000000
14 TMD_C_JMD_C-Seg...4,5)-LEVM760105 Shape Side chain length Side chain length Radius of gyrat... (Levitt, 1976) 0.204000 0.105513 0.105513 0.132849 0.145219 0.000000 0.000009 33,34,35,36 1.992000 2.929460
15 TMD_C_JMD_C-Seg...6,9)-DESM900102 Polarity Amphiphilicity (α-helix) Membrane preference Average membran...i et al., 1990) 0.200000 0.132693 -0.132693 0.184359 0.209008 0.000000 0.000015 32,33 0.000000 0.000000
16 TMD_C_JMD_C-Seg...3,4)-PRAM820102 Shape Shape and Surface Slope in Regression Slope in Regres...nnuswamy, 1982) 0.199000 0.073023 -0.073023 0.087336 0.107750 0.000000 0.000017 31,32,33,34,35 0.616000 0.847660
17 TMD_C_JMD_C-Seg...2,3)-CHOP780212 Conformation β-sheet (C-term) β-turn (1st residue) Frequency of th...-Fasman, 1978b) 0.199000 0.065983 -0.065983 0.087814 0.105835 0.000000 0.000016 27,28,29,30,31,32,33 4.106000 5.236574
18 TMD_C_JMD_C-Seg...6,9)-RICJ880113 Conformation α-helix (C-cap) α-helix (C-terminal, inside) Relative prefer...chardson, 1988) 0.198000 0.138293 0.138293 0.172194 0.198814 0.000000 0.000017 32,33 0.832400 1.383718
19 TMD_C_JMD_C-Pat...5,8)-RADA880104 Energy Free energy (unfolding) Transfer free e...(TFE) to inside Transfer free e...olfenden, 1988) 0.197000 0.060758 0.060758 0.050818 0.095267 0.000000 0.000019 25,28 1.658800 3.421774
20 JMD_N_TMD_N-Seg...1,2)-KARP850101 Structure-Activity Flexibility Flexibility (0 ...igid neighbors) Flexibility par...s-Schulz, 1985) 0.196000 0.062671 0.062671 0.083456 0.090427 0.000000 0.000023 1,2,3,4,5,6,7,8,9,10 1.574400 1.835403
21 TMD-Pattern(C,4,7)-RADA880104 Energy Free energy (unfolding) Transfer free e...(TFE) to inside Transfer free e...olfenden, 1988) 0.195000 0.060096 0.060096 0.050818 0.095039 0.000000 0.000023 24,27 0.000000 0.000000
22 TMD_C_JMD_C-Seg...4,5)-RADA880106 ASA/Volume Volume Accessible surface area (ASA) Accessible surf...olfenden, 1988) 0.193000 0.076770 0.076770 0.092804 0.114150 0.000000 0.000027 33,34,35,36 0.000000 0.000000
23 TMD_C_JMD_C-Seg...4,6)-FAUJ880109 Energy Isoelectric point Number hydrogen bond donors Number of hydro...e et al., 1988) 0.192000 0.125521 0.125521 0.188795 0.177163 0.000000 0.000027 31,32,33 0.000000 0.000000
24 TMD_C_JMD_C-Seg...,11)-LIFS790102 Conformation β-strand β-strand Conformational ...n-Sander, 1979) 0.189000 0.125674 0.125674 0.183876 0.218813 0.000001 0.000039 28,29 4.729200 4.776785
25 TMD_C_JMD_C-Seg...6,9)-TANS770106 Conformation β-turn (TM helix) β-turn in double bend Normalized freq...Scheraga, 1977) 0.189000 0.093759 0.093759 0.136715 0.137320 0.000001 0.000039 32,33 0.000000 0.000000
26 TMD_C_JMD_C-Pat...4,8)-JANJ790102 Energy Free energy (unfolding) Transfer free e...(TFE) to inside Transfer free e...y (Janin, 1979) 0.187000 0.144354 -0.144354 0.181777 0.233103 0.000001 0.000049 33,37 2.833600 3.640617
27 TMD_C_JMD_C-Seg...4,5)-CHOC760103 ASA/Volume Buried Buried Proportion of r...(Chothia, 1976) 0.185000 0.105474 -0.105474 0.157535 0.163039 0.000001 0.000059 33,34,35,36 0.000000 0.000000
28 TMD_C_JMD_C-Seg...6,9)-MITS020101 Polarity Amphiphilicity Amphiphilicity Amphiphilicity ...u et al., 2002) 0.185000 0.101798 0.101798 0.145676 0.155096 0.000001 0.000054 32,33 0.000000 0.000000
29 JMD_N_TMD_N-Pat...,10)-AURR980116 Conformation α-helix (C-cap) α-helix (C-terminal, C-cap) Normalized posi...ora-Rose, 1998) 0.184000 0.112728 -0.112728 0.166431 0.183800 0.000001 0.000061 11,15 0.857600 1.339550
30 TMD_C_JMD_C-Pat...,15)-FINA910104 Conformation α-helix (C-cap) α-helix termination Helix terminati...n et al., 1991) 0.184000 0.062096 0.062096 0.078809 0.091271 0.000000 0.000017 26,30,33 0.147200 0.345306
31 JMD_N_TMD_N-Seg...2,4)-ZHOH040101 Structure-Activity Stability Stability The stability s...hou-Zhou, 2004) 0.183000 0.063902 -0.063902 0.090842 0.101427 0.000002 0.000068 6,7,8,9,10 0.823200 1.404583
32 TMD_C_JMD_C-Seg...4,5)-RICJ880113 Conformation α-helix (C-cap) α-helix (C-terminal, inside) Relative prefer...chardson, 1988) 0.182000 0.121315 0.121315 0.147184 0.184212 0.000002 0.000070 33,34,35,36 0.865200 1.553379
33 TMD-Pattern(C,3...,15)-ANDN920101 Structure-Activity Backbone-dynamics (-CH) α-CH chemical s...kbone-dynamics) alpha-CH chemic...n et al., 1992) 0.182000 0.098529 -0.098529 0.141641 0.162412 0.000002 0.000072 16,20,24,28 0.221200 0.519240
34 TMD-Pattern(C,3...,15)-LIFS790102 Conformation β-strand β-strand Conformational ...n-Sander, 1979) 0.182000 0.096246 0.096246 0.160859 0.159538 0.000002 0.000070 16,20,24,28 0.508400 0.738667
35 JMD_N_TMD_N-Seg...2,4)-CIDH920102 Polarity Hydrophobicity Hydrophobicity Normalized hydr...d et al., 1992) 0.182000 0.066394 -0.066394 0.097857 0.103426 0.000002 0.000070 6,7,8,9,10 0.000000 0.000000
36 TMD_C_JMD_C-Seg...2,3)-JANJ780101 ASA/Volume Accessible surface area (ASA) ASA (folded protein) Average accessi...n et al., 1978) 0.182000 0.063819 0.063819 0.101691 0.105987 0.000002 0.000071 27,28,29,30,31,32,33 0.000000 0.000000
37 TMD-Pattern(N,4,7)-AURR980116 Conformation α-helix (C-cap) α-helix (C-terminal, C-cap) Normalized posi...ora-Rose, 1998) 0.181000 0.118349 -0.118349 0.169282 0.185522 0.000002 0.000078 14,17 1.226400 1.510986
38 TMD_C_JMD_C-Seg...,11)-QIAN880134 Conformation Coil Coil Weights for coi...ejnowski, 1988) 0.181000 0.057287 -0.057287 0.072234 0.106512 0.000002 0.000076 28,29 1.919600 2.094497
39 TMD_C_JMD_C-Pat...,12)-ANDN920101 Structure-Activity Backbone-dynamics (-CH) α-CH chemical s...kbone-dynamics) alpha-CH chemic...n et al., 1992) 0.180000 0.096784 -0.096784 0.151260 0.170153 0.000002 0.000084 25,29,32 0.356800 0.617224
40 TMD-PeriodicPat...3,4)-VELV850101 Energy Electron-ion interaction pot. Electron-ion in...ction potential Electron-ion in...c et al., 1985) 0.180000 0.069277 -0.069277 0.094949 0.119524 0.000002 0.000082 13,16,20,23,27 1.818000 2.308293
41 TMD_C_JMD_C-Seg...2,2)-FAUJ880109 Energy Isoelectric point Number hydrogen bond donors Number of hydro...e et al., 1988) 0.180000 0.067391 0.067391 0.098544 0.113033 0.000002 0.000080 31,32,33,34,35,36,37,38,39,40 0.635200 1.205475
42 JMD_N_TMD_N-Pat...,15)-CHAM830104 Shape Side chain length n atoms in side chain (2+1) The number of a...-Charton, 1983) 0.179000 0.115042 -0.115042 0.151938 0.189623 0.000002 0.000068 6,9,12,15 0.648400 1.061142
43 JMD_N_TMD_N-Per...4,3)-QIAN880138 Conformation Coil (C-term) Coil (C-terminal) Weights for coi...ejnowski, 1988) 0.179000 0.069852 0.069852 0.103576 0.116589 0.000003 0.000093 3,6,10,13,17,20 0.385200 0.555965
44 TMD-Pattern(C,4,7)-LIFS790102 Conformation β-strand β-strand Conformational ...n-Sander, 1979) 0.176000 0.120892 0.120892 0.198986 0.216030 0.000004 0.000113 24,27 0.714800 1.118149
45 TMD_C_JMD_C-Pat...4,8)-KANM800103 Conformation α-helix α-helix Average relativ...sa-Tsong, 1980) 0.176000 0.087846 0.087846 0.140464 0.157561 0.000004 0.000113 24,28 2.704000 4.076269
46 TMD_C_JMD_C-Pat...,12)-FAUJ880108 Energy Electron-ion interaction pot. Electrical Effect Localized Elect...e et al., 1988) 0.176000 0.064253 -0.064253 0.092619 0.113588 0.000004 0.000113 21,24,28,32 0.826400 1.303426
47 TMD-Pattern(C,4,7)-QIAN880134 Conformation Coil Coil Weights for coi...ejnowski, 1988) 0.176000 0.056675 -0.056675 0.099355 0.114698 0.000004 0.000113 24,27 0.372000 0.882270
48 TMD_C_JMD_C-Seg...4,5)-TANS770106 Conformation β-turn (TM helix) β-turn in double bend Normalized freq...Scheraga, 1977) 0.175000 0.078020 0.078020 0.113536 0.125285 0.000005 0.000129 33,34,35,36 0.000000 0.000000
49 TMD_C_JMD_C-Seg...2,3)-WILM950103 Polarity Hydrophobicity (interface) Hydrophobicity (interface) Hydrophobicity ...e et al., 1995) 0.175000 0.055597 -0.055597 0.089100 0.105827 0.000005 0.000126 27,28,29,30,31,32,33 0.664000 1.089536
50 TMD_C_JMD_C-Seg...4,5)-YUTK870103 Energy Free energy (unfolding) Free energy (unfolding) Activation Gibb...i et al., 1987) 0.174000 0.123237 -0.123237 0.192743 0.197652 0.000005 0.000134 33,34,35,36 0.000000 0.000000
51 JMD_N_TMD_N-Per...4,3)-QIAN880138 Conformation Coil (C-term) Coil (C-terminal) Weights for coi...ejnowski, 1988) 0.174000 0.067216 0.067216 0.105047 0.116197 0.000005 0.000133 1,4,8,11,15,18 0.000000 0.000000
52 TMD_C_JMD_C-Pat...,11)-QIAN880122 Conformation β-strand β-sheet Weights for bet...ejnowski, 1988) 0.173000 0.056328 0.056328 0.067428 0.094795 0.000006 0.000147 25,28,31 0.483200 0.913371
53 JMD_N_TMD_N-Per...3,2)-CHAM830104 Shape Side chain length n atoms in side chain (2+1) The number of a...-Charton, 1983) 0.172000 0.087470 -0.087470 0.135114 0.144731 0.000005 0.000137 2,5,8,11,14,17,20 0.444000 0.721620
54 TMD_C_JMD_C-Seg...2,3)-PRAM820102 Shape Shape and Surface Slope in Regression Slope in Regres...nnuswamy, 1982) 0.172000 0.056268 -0.056268 0.074692 0.093571 0.000006 0.000151 27,28,29,30,31,32,33 0.303600 0.618242
55 TMD_C_JMD_C-Pat...,15)-YUTK870101 Energy Free energy (unfolding) Free energy (unfolding) Unfolding Gibbs...i et al., 1987) 0.171000 0.074769 -0.074769 0.122674 0.130394 0.000007 0.000164 26,30,33 0.757200 0.884324
56 TMD_C_JMD_C-Seg...2,3)-HUTJ700102 Energy Entropy Entropy Absolute entrop...Hutchens, 1970) 0.170000 0.057307 0.057307 0.087801 0.097929 0.000008 0.000175 27,28,29,30,31,32,33 0.000000 0.000000
57 TMD_C_JMD_C-Seg...2,3)-JANJ790102 Energy Free energy (unfolding) Transfer free e...(TFE) to inside Transfer free e...y (Janin, 1979) 0.169000 0.054819 -0.054819 0.095746 0.100423 0.000010 0.000201 27,28,29,30,31,32,33 0.000000 0.000000
58 TMD_C_JMD_C-Seg...4,5)-DESM900102 Polarity Amphiphilicity (α-helix) Membrane preference Average membran...i et al., 1990) 0.168000 0.106440 -0.106440 0.168586 0.175701 0.000011 0.000216 33,34,35,36 0.000000 0.000000
59 TMD_C_JMD_C-Pat...,14)-KLEP840101 Energy Charge Charge Net charge (Kle...n et al., 1984) 0.168000 0.086323 0.086323 0.121405 0.138577 0.000000 0.000030 30,34 0.140400 0.391229
60 JMD_N_TMD_N-Pat...,11)-QIAN880127 Conformation Coil (N-term) Coil (N-terminal) Weights for coi...ejnowski, 1988) 0.168000 0.071770 -0.071770 0.116934 0.123667 0.000011 0.000216 4,7,11 0.616400 1.124195
61 TMD_C_JMD_C-Seg...2,2)-RICJ880113 Conformation α-helix (C-cap) α-helix (C-terminal, inside) Relative prefer...chardson, 1988) 0.168000 0.067627 0.067627 0.098469 0.110321 0.000011 0.000215 31,32,33,34,35,36,37,38,39,40 1.105200 1.425601
62 TMD_C_JMD_C-Seg...4,5)-MITS020101 Polarity Amphiphilicity Amphiphilicity Amphiphilicity ...u et al., 2002) 0.167000 0.080568 0.080568 0.128898 0.128726 0.000011 0.000218 33,34,35,36 1.299200 2.159535
63 TMD-Pattern(C,5...,12)-PRAM820102 Shape Shape and Surface Slope in Regression Slope in Regres...nnuswamy, 1982) 0.167000 0.077343 0.077343 0.135340 0.134263 0.000012 0.000228 19,22,26 1.301600 1.697263
64 TMD_C_JMD_C-Pat...,12)-FINA770101 Structure-Activity Stability (helix-coil) Stability (helix-coil) Helix-coil equi...-Ptitsyn, 1977) 0.167000 0.070129 0.070129 0.114947 0.126566 0.000012 0.000223 21,24,28,32 1.199200 1.554845
65 TMD_C_JMD_C-Seg...4,5)-AURR980110 Conformation α-helix α-helix (middle) Normalized posi...ora-Rose, 1998) 0.166000 0.081797 0.081797 0.121170 0.149555 0.000013 0.000239 33,34,35,36 1.295200 2.225137
66 TMD-Pattern(C,4,7)-VELV850101 Energy Electron-ion interaction pot. Electron-ion in...ction potential Electron-ion in...c et al., 1985) 0.165000 0.121210 -0.121210 0.143560 0.207767 0.000015 0.000254 24,27 1.302000 1.466618
67 TMD_C_JMD_C-Pat...5,8)-VELV850101 Energy Electron-ion interaction pot. Electron-ion in...ction potential Electron-ion in...c et al., 1985) 0.165000 0.119568 -0.119568 0.143560 0.205817 0.000014 0.000253 25,28 0.000000 0.000000
68 TMD-Pattern(C,5...,12)-HUTJ700102 Energy Entropy Entropy Absolute entrop...Hutchens, 1970) 0.165000 0.063134 -0.063134 0.104624 0.113955 0.000015 0.000258 19,22,26 0.000000 0.000000
69 TMD_C_JMD_C-Seg...5,7)-TANS770108 Conformation β/α-bridge β/α-bridge Normalized freq...Scheraga, 1977) 0.164000 0.079708 0.079708 0.135324 0.137910 0.000016 0.000271 32,33,34 0.462400 0.706967
70 TMD_C_JMD_C-Pat...,12)-CHOP780212 Conformation β-sheet (C-term) β-turn (1st residue) Frequency of th...-Fasman, 1978b) 0.164000 0.076207 -0.076207 0.125506 0.147002 0.000016 0.000267 24,28,32 1.095600 1.575630
71 TMD-PeriodicPat...3,1)-COHE430101 ASA/Volume Partial specific volume Partial specific volume Partial specifi...n-Edsall, 1943) 0.164000 0.058745 0.058745 0.092103 0.106413 0.000017 0.000276 12,15,18,21,24,27,30 1.141600 1.375595
72 TMD-Pattern(C,5...,15)-OOBM770105 Energy Non-bonded energy Non-bonded energy per residue Short and mediu...take-Ooi, 1977) 0.164000 0.056983 0.056983 0.099221 0.102039 0.000017 0.000274 16,19,22,26 1.305600 1.643621
73 TMD-Pattern(C,4,7)-ANDN920101 Structure-Activity Backbone-dynamics (-CH) α-CH chemical s...kbone-dynamics) alpha-CH chemic...n et al., 1992) 0.163000 0.128817 -0.128817 0.184672 0.227780 0.000020 0.000293 24,27 0.872800 1.063156
74 TMD_C_JMD_C-Pat...,11)-EISD860101 Polarity Hydrophobicity Solvation free energy Solvation free ...cLachlan, 1986) 0.162000 0.083936 -0.083936 0.143338 0.147948 0.000021 0.000304 30,33,37 0.330400 0.377566
75 TMD_C_JMD_C-Pat...5,8)-QIAN880130 Conformation Coil Coil Weights for coi...ejnowski, 1988) 0.162000 0.070292 -0.070292 0.096915 0.128362 0.000020 0.000302 21,25,28 1.528400 2.418922
76 TMD-Pattern(C,4...,11)-QIAN880130 Conformation Coil Coil Weights for coi...ejnowski, 1988) 0.161000 0.068424 -0.068424 0.096915 0.126975 0.000024 0.000332 20,24,27 0.000000 0.000000
77 JMD_N_TMD_N-Seg...2,4)-BIOV880101 ASA/Volume Buried Buriability Information val...u et al., 1988) 0.161000 0.058976 -0.058976 0.096823 0.114647 0.000025 0.000335 6,7,8,9,10 0.000000 0.000000
78 JMD_N_TMD_N-Pat...,11)-PRAM820103 Shape Shape and Surface Correlation coe...t in regression Correlation coe...nnuswamy, 1982) 0.161000 0.057828 0.057828 0.088362 0.106085 0.000024 0.000328 1,5,8,11 1.304400 1.657101
79 TMD_C_JMD_C-Seg...5,7)-ROSM880103 Structure-Activity Backbone-dynamics (-CH) Loss of hydropa...helix formation Loss of Side ch...(Roseman, 1988) 0.160000 0.059281 -0.059281 0.100693 0.120806 0.000027 0.000359 32,33,34 0.757200 1.471249
80 TMD_C_JMD_C-Pat...4,8)-FINA910104 Conformation α-helix (C-cap) α-helix termination Helix terminati...n et al., 1991) 0.159000 0.103808 0.103808 0.140977 0.179008 0.000014 0.000248 33,37 0.233200 0.593921
81 TMD-Pattern(N,1...4,7)-FINA770101 Structure-Activity Stability (helix-coil) Stability (helix-coil) Helix-coil equi...-Ptitsyn, 1977) 0.158000 0.089108 -0.089108 0.164444 0.163909 0.000035 0.000420 11,14,17 1.014000 1.539338
82 JMD_N_TMD_N-Seg...,13)-ZHOH040101 Structure-Activity Stability Stability The stability s...hou-Zhou, 2004) 0.157000 0.127895 -0.127895 0.151304 0.258491 0.000035 0.000420 5,6 0.833200 1.360696
83 TMD_C_JMD_C-Seg...3,4)-MONM990101 Conformation β-turn (TM helix) β-turn (TM helix) Turn propensity...e et al., 1999) 0.157000 0.093480 0.093480 0.163797 0.179896 0.000039 0.000449 31,32,33,34,35 0.000000 0.000000
84 JMD_N_TMD_N-Seg...,15)-FAUJ880101 Shape Steric parameter Shape Index Graph shape ind...e et al., 1988) 0.156000 0.093808 -0.093808 0.157361 0.168800 0.000042 0.000458 6 0.379600 0.843756
85 TMD_C_JMD_C-Pat...4,8)-JANJ780101 ASA/Volume Accessible surface area (ASA) ASA (folded protein) Average accessi...n et al., 1978) 0.155000 0.110281 0.110281 0.178578 0.202098 0.000046 0.000486 33,37,40 0.272400 0.623809
86 JMD_N_TMD_N-Pat...,12)-FINA770101 Structure-Activity Stability (helix-coil) Stability (helix-coil) Helix-coil equi...-Ptitsyn, 1977) 0.155000 0.087029 -0.087029 0.163718 0.162392 0.000049 0.000508 9,12,15 0.000000 0.000000
87 JMD_N_TMD_N-Pat...,13)-RICJ880107 Conformation π-helix α-helix Relative prefer...chardson, 1988) 0.155000 0.066867 -0.066867 0.105803 0.129430 0.000047 0.000496 3,6,9,13 0.335200 0.649905
88 JMD_N_TMD_N-Pat...,15)-RADA880106 ASA/Volume Volume Accessible surface area (ASA) Accessible surf...olfenden, 1988) 0.155000 0.059593 -0.059593 0.104862 0.110749 0.000050 0.000508 6,9,12,15 0.482000 0.672000
89 JMD_N_TMD_N-Pat...,11)-ARGP820101 Polarity Hydrophobicity Hydrophobicity Hydrophobicity ...s et al., 1982) 0.154000 0.092099 -0.092099 0.142836 0.171547 0.000052 0.000520 4,7,11 1.065200 1.916900
90 TMD_C_JMD_C-Seg...,10)-CHAM820102 Polarity Hydrophobicity (interface) Free energy (interface) Free energy of ...-Charton, 1982) 0.154000 0.082300 -0.082300 0.136264 0.177551 0.000050 0.000508 33,34 0.366800 0.691767
91 TMD-Pattern(C,5...,12)-MAXF760105 Conformation α-helix (left-handed) α-helix (left-handed) Normalized freq...Scheraga, 1976) 0.154000 0.062226 0.062226 0.144085 0.119863 0.000057 0.000548 19,22,26 0.715200 1.186306
92 TMD_C_JMD_C-Pat...,11)-BIOV880101 ASA/Volume Buried Buriability Information val...u et al., 1988) 0.153000 0.085041 -0.085041 0.135864 0.161279 0.000059 0.000561 30,33,37 0.473600 0.930690
93 TMD_C_JMD_C-Pat...,15)-WILM950103 Polarity Hydrophobicity (interface) Hydrophobicity (interface) Hydrophobicity ...e et al., 1995) 0.153000 0.069595 -0.069595 0.107314 0.134698 0.000060 0.000566 26,29,33 0.770800 1.299178
94 TMD-Pattern(N,2...,11)-RACS820101 Conformation β-sheet (N-term) α-helix with fl...α structure (i) Average relativ...Scheraga, 1982) 0.153000 0.062678 -0.062678 0.109868 0.123054 0.000061 0.000570 12,15,18,21 0.333600 0.598524
95 JMD_N_TMD_N-Seg...3,8)-FAUJ880101 Shape Steric parameter Shape Index Graph shape ind...e et al., 1988) 0.152000 0.070636 -0.070636 0.127109 0.134520 0.000071 0.000626 6,7 0.184800 0.448866
96 TMD_C_JMD_C-Pat...,15)-LINS030106 ASA/Volume Accessible surface area (ASA) Hydrophilic ASA...olded proteins) Hydrophilic med...s et al., 2003) 0.151000 0.071208 0.071208 0.136279 0.155749 0.000078 0.000657 26,30,33 0.326400 0.451202
97 JMD_N_TMD_N-Seg...2,4)-MEIH800101 Shape Reduced distance Reduced distance (C-α) Average reduced...h et al., 1980) 0.151000 0.060954 0.060954 0.099010 0.121406 0.000072 0.000631 6,7,8,9,10 0.000000 0.000000
98 TMD-Pattern(C,3...,14)-TANS770102 Conformation α-helix (C-term, out) α-helix (C-terminal, outside) Normalized freq...Scheraga, 1977) 0.150000 0.056439 -0.056439 0.094520 0.108682 0.000084 0.000685 17,20,24,28 0.684400 0.941892
99 JMD_N_TMD_N-Seg...2,6)-MEIH800101 Shape Reduced distance Reduced distance (C-α) Average reduced...h et al., 1980) 0.149000 0.075519 0.075519 0.131494 0.155207 0.000091 0.000715 4,5,6 0.376000 0.526004
100 TMD_C_JMD_C-Pat...,10)-LEVM760105 Shape Side chain length Side chain length Radius of gyrat... (Levitt, 1976) 0.149000 0.073526 0.073526 0.133612 0.157088 0.000090 0.000714 31,34,38 2.050800 2.338278
101 TMD_C_JMD_C-Pat...,13)-CHOP780212 Conformation β-sheet (C-term) β-turn (1st residue) Frequency of th...-Fasman, 1978b) 0.149000 0.069627 -0.069627 0.113251 0.143949 0.000093 0.000725 26,29,33 0.842800 1.314094
102 TMD_C_JMD_C-Pat...3,7)-OOBM770105 Energy Non-bonded energy Non-bonded energy per residue Short and mediu...take-Ooi, 1977) 0.149000 0.067384 0.067384 0.134029 0.143995 0.000095 0.000731 23,27 0.868400 1.469467
103 JMD_N_TMD_N-Pat...,11)-RACS820101 Conformation β-sheet (N-term) α-helix with fl...α structure (i) Average relativ...Scheraga, 1982) 0.149000 0.063073 -0.063073 0.107731 0.126806 0.000091 0.000716 10,13,16,19 0.000000 0.000000
104 JMD_N_TMD_N-Seg...2,6)-ARGP820101 Polarity Hydrophobicity Hydrophobicity Hydrophobicity ...s et al., 1982) 0.148000 0.076361 -0.076361 0.140513 0.148387 0.000108 0.000790 4,5,6 0.537200 1.041739
105 JMD_N_TMD_N-Pat...,15)-BROC820101 Polarity Hydrophobicity Hydrophobicity ...on coefficient) Retention Coeff...e et al., 1982) 0.148000 0.067069 -0.067069 0.120409 0.137261 0.000103 0.000768 6,9,12,15 0.106400 0.249766
106 TMD_C_JMD_C-Pat...4,8)-CORJ870107 Polarity Amphiphilicity (α-helix) Amphiphilicity (α-helix) TOTFT index (Co...e et al., 1987) 0.147000 0.086326 0.086326 0.163515 0.196429 0.000111 0.000799 24,28 0.420400 0.765639
107 TMD_C_JMD_C-Seg...2,5)-ANDN920101 Structure-Activity Backbone-dynamics (-CH) α-CH chemical s...kbone-dynamics) alpha-CH chemic...n et al., 1992) 0.147000 0.079575 -0.079575 0.145620 0.160200 0.000115 0.000811 25,26,27,28 0.322000 0.559943
108 TMD-Pattern(C,4...,11)-RICJ880107 Conformation π-helix α-helix Relative prefer...chardson, 1988) 0.146000 0.068957 0.068957 0.131400 0.140413 0.000131 0.000868 20,23,27 0.697200 1.056350
109 TMD_C_JMD_C-Seg...,11)-COHE430101 ASA/Volume Partial specific volume Partial specific volume Partial specifi...n-Edsall, 1943) 0.145000 0.124999 0.124999 0.180151 0.242281 0.000145 0.000912 28,29 1.740800 2.317117
110 TMD_C_JMD_C-Pat...4,8)-MEIH800101 Shape Reduced distance Reduced distance (C-α) Average reduced...h et al., 1980) 0.144000 0.101763 0.101763 0.161290 0.209898 0.000156 0.000951 33,37 0.000000 0.000000
111 JMD_N_TMD_N-Seg...,10)-RICJ880111 Conformation π-helix α-helix Relative prefer...chardson, 1988) 0.143000 0.069574 -0.069574 0.126051 0.159340 0.000173 0.001007 5,6 0.363200 0.326260
112 JMD_N_TMD_N-Pat...,11)-BIGC670101 ASA/Volume Volume Volume Residue volume (Bigelow, 1967) 0.143000 0.067181 -0.067181 0.141579 0.135502 0.000184 0.001045 5,8,11 0.382000 0.675082
113 JMD_N_TMD_N-Pat...,11)-CIDH920102 Polarity Hydrophobicity Hydrophobicity Normalized hydr...d et al., 1992) 0.142000 0.070908 -0.070908 0.135389 0.144272 0.000190 0.001062 5,8,11 0.384400 0.570074
114 JMD_N_TMD_N-Pat...,14)-BAEK050101 Conformation β-strand Linker index (n...AA long region) Linker index (B...e et al., 2005) 0.142000 0.058743 -0.058743 0.117342 0.120311 0.000187 0.001056 6,10,14 0.197200 0.344958
115 TMD-Pattern(N,4,7)-QIAN880113 Conformation π-helix α-helix (C-terminal) Weights for alp...ejnowski, 1988) 0.141000 0.070553 -0.070553 0.164819 0.154840 0.000217 0.001151 14,17 0.634800 0.816456
116 JMD_N_TMD_N-Seg...3,6)-VASM830102 Energy Non-bonded energy Free energy (Extended) Relative popula...z et al., 1983) 0.141000 0.067593 0.067593 0.146572 0.140332 0.000225 0.001173 7,8,9,10 0.484800 0.832789
117 TMD_C_JMD_C-Pat...,14)-HUTJ700102 Energy Entropy Entropy Absolute entrop...Hutchens, 1970) 0.140000 0.086678 0.086678 0.145086 0.183353 0.000250 0.001252 30,34 0.162800 0.333317
118 TMD-Pattern(C,4...,11)-FINA770101 Structure-Activity Stability (helix-coil) Stability (helix-coil) Helix-coil equi...-Ptitsyn, 1977) 0.140000 0.070899 0.070899 0.135187 0.153279 0.000233 0.001204 20,23,27 0.000000 0.000000
119 TMD_C_JMD_C-Pat...4,8)-MITS020101 Polarity Amphiphilicity Amphiphilicity Amphiphilicity ...u et al., 2002) 0.140000 0.066859 0.066859 0.130397 0.147129 0.000229 0.001185 33,37,40 0.334800 0.632640
120 JMD_N_TMD_N-Seg...2,7)-ZHOH040101 Structure-Activity Stability Stability The stability s...hou-Zhou, 2004) 0.139000 0.070195 -0.070195 0.113589 0.146944 0.000259 0.001276 3,4,5 0.498800 0.924962
121 TMD_C_JMD_C-Pat...,12)-QIAN880114 Conformation β-sheet (N-term) β-sheet (N-terminal) Weights for bet...ejnowski, 1988) 0.138000 0.070821 -0.070821 0.121293 0.151868 0.000310 0.001400 24,28,32 0.718800 1.295090
122 JMD_N_TMD_N-Seg...2,6)-RACS770103 ASA/Volume Accessible surface area (ASA) Side chain orientation Side chain orie...Scheraga, 1977) 0.138000 0.069674 0.069674 0.151437 0.143090 0.000308 0.001398 4,5,6 0.214400 0.501327
123 JMD_N_TMD_N-Pat...,11)-HUTJ700102 Energy Entropy Entropy Absolute entrop...Hutchens, 1970) 0.138000 0.061121 -0.061121 0.128877 0.124138 0.000304 0.001387 1,5,8,11 0.352400 0.457395
124 TMD_C_JMD_C-Pat...,15)-MONM990101 Conformation β-turn (TM helix) β-turn (TM helix) Turn propensity...e et al., 1999) 0.137000 0.073116 0.073116 0.137320 0.169283 0.000297 0.001373 26,30,33 0.180400 0.297153
125 TMD_C_JMD_C-Seg...4,8)-MEIH800101 Shape Reduced distance Reduced distance (C-α) Average reduced...h et al., 1980) 0.137000 0.072970 -0.072970 0.120345 0.157741 0.000342 0.001501 28,29,30 0.298000 1.061395
126 TMD_C_JMD_C-Pat...,10)-QIAN880138 Conformation Coil (C-term) Coil (C-terminal) Weights for coi...ejnowski, 1988) 0.137000 0.065719 -0.065719 0.114425 0.146722 0.000312 0.001404 31,35,39 0.360800 0.882718
127 JMD_N_TMD_N-Seg...7,8)-KARS160114 Shape Side chain length Eccentricity (average) Average weighte...-Knisley, 2016) 0.137000 0.056352 -0.056352 0.122287 0.122893 0.000322 0.001432 16,17 1.170800 1.925978
128 TMD_C_JMD_C-Seg...,14)-ROSM880103 Structure-Activity Backbone-dynamics (-CH) Loss of hydropa...helix formation Loss of Side ch...(Roseman, 1988) 0.136000 0.080537 -0.080537 0.194254 0.165343 0.000150 0.000932 26,27 0.638000 0.796859
129 TMD_C_JMD_C-Seg...,10)-BAEK050101 Conformation β-strand Linker index (n...AA long region) Linker index (B...e et al., 2005) 0.136000 0.072267 -0.072267 0.142246 0.173638 0.000352 0.001527 33,34 1.013200 1.315181
130 TMD_C_JMD_C-Pat...5,8)-LINS030107 ASA/Volume Accessible surface area (ASA) ASA (folded protein) % total accessi...s et al., 2003) 0.136000 0.064864 -0.064864 0.078387 0.131618 0.000367 0.001565 25,28 0.842000 0.904274
131 TMD_C_JMD_C-Seg...6,9)-PALJ810113 Conformation α-helix (left-handed) β-turn (α class) Normalized freq...u et al., 1981) 0.135000 0.072992 -0.072992 0.138972 0.165851 0.000412 0.001667 32,33 0.292400 0.546994
132 TMD_C_JMD_C-Seg...2,3)-YUTK870103 Energy Free energy (unfolding) Free energy (unfolding) Activation Gibb...i et al., 1987) 0.135000 0.067074 -0.067074 0.127768 0.106936 0.000409 0.001662 27,28,29,30,31,32,33 0.000000 0.000000
133 JMD_N_TMD_N-Pat...6,9)-ZHOH040101 Structure-Activity Stability Stability The stability s...hou-Zhou, 2004) 0.135000 0.062723 -0.062723 0.120282 0.141044 0.000396 0.001638 3,6,9 0.696800 1.062095
134 TMD-Pattern(N,1...4,7)-RADA880106 ASA/Volume Volume Accessible surface area (ASA) Accessible surf...olfenden, 1988) 0.135000 0.058024 -0.058024 0.115415 0.124556 0.000385 0.001610 11,14,17 0.244400 0.503183
135 JMD_N_TMD_N-Seg...,10)-CRAJ730102 Conformation β-sheet β-sheet Normalized freq...d et al., 1973) 0.134000 0.096792 -0.096792 0.182935 0.210285 0.000461 0.001775 5,6 0.485600 0.792949
136 JMD_N_TMD_N-Pat...,14)-QIAN880134 Conformation Coil Coil Weights for coi...ejnowski, 1988) 0.133000 0.071020 0.071020 0.161372 0.138873 0.000491 0.001836 6,10,14 0.000000 0.000000
137 JMD_N_TMD_N-Pat...,12)-RICJ880111 Conformation π-helix α-helix Relative prefer...chardson, 1988) 0.133000 0.054446 -0.054446 0.113232 0.124195 0.000466 0.001785 9,12,15 0.113200 0.232615
138 JMD_N_TMD_N-Seg...7,9)-BURA740102 Conformation β-strand Extended Normalized freq...s et al., 1974) 0.132000 0.056043 0.056043 0.119813 0.123454 0.000562 0.001981 14,15 0.231600 0.356019
139 TMD-Segment(3,8)-TANS770102 Conformation α-helix (C-term, out) α-helix (C-terminal, outside) Normalized freq...Scheraga, 1977) 0.132000 0.055783 -0.055783 0.129933 0.133383 0.000558 0.001977 16,17 0.502400 0.761626
140 TMD-Pattern(N,1...,10)-QIAN880124 Conformation β-sheet (C-term) β-sheet (C-terminal) Weights for bet...ejnowski, 1988) 0.131000 0.069857 0.069857 0.157078 0.159138 0.000580 0.002008 11,14,17,20 0.502800 0.811308
141 TMD_C_JMD_C-Pat...,10)-TANS770106 Conformation β-turn (TM helix) β-turn in double bend Normalized freq...Scheraga, 1977) 0.131000 0.056621 0.056621 0.144377 0.128425 0.000597 0.002043 31,34,38 0.726800 0.885807
142 JMD_N_TMD_N-Pat...,11)-ANDN920101 Structure-Activity Backbone-dynamics (-CH) α-CH chemical s...kbone-dynamics) alpha-CH chemic...n et al., 1992) 0.130000 0.087733 -0.087733 0.180612 0.187328 0.000674 0.002190 10,13,17 0.420000 0.643453
143 JMD_N_TMD_N-Pat...,14)-BIOV880101 ASA/Volume Buried Buriability Information val...u et al., 1988) 0.130000 0.067433 -0.067433 0.133237 0.146065 0.000642 0.002130 7,11,14 0.306800 0.574245
144 JMD_N_TMD_N-Seg...2,4)-QIAN880114 Conformation β-sheet (N-term) β-sheet (N-terminal) Weights for bet...ejnowski, 1988) 0.130000 0.058210 0.058210 0.127516 0.112411 0.000633 0.002111 6,7,8,9,10 0.140800 0.376807
145 JMD_N_TMD_N-Pat...,11)-VASM830102 Energy Non-bonded energy Free energy (Extended) Relative popula...z et al., 1983) 0.129000 0.077724 0.077724 0.148907 0.164954 0.000708 0.002247 4,8,11 0.160400 0.302939
146 TMD_C_JMD_C-Pat...3,7)-MAXF760105 Conformation α-helix (left-handed) α-helix (left-handed) Normalized freq...Scheraga, 1976) 0.129000 0.071374 0.071374 0.180851 0.152571 0.000727 0.002285 23,27 0.000000 0.000000
147 JMD_N_TMD_N-Seg...3,9)-KOEP990102 Conformation β-sheet (N-term) Extended (designed β-sheet) Beta-sheet prop...l-Levitt, 1999) 0.128000 0.086726 0.086726 0.184173 0.184291 0.000769 0.002364 5,6 0.565600 0.778424
148 TMD_C_JMD_C-Pat...,11)-TANS770102 Conformation α-helix (C-term, out) α-helix (C-terminal, outside) Normalized freq...Scheraga, 1977) 0.128000 0.062708 -0.062708 0.113629 0.123346 0.000767 0.002362 25,28,31 0.407200 0.686822
149 JMD_N_TMD_N-Seg...2,3)-CHAM830105 Shape Side chain length n atoms in side chain (3+1) The number of a...-Charton, 1983) 0.128000 0.057140 -0.057140 0.128493 0.130946 0.000672 0.002187 7,8,9,10,11,12,13 0.121600 0.273037
150 JMD_N_TMD_N-Seg...3,9)-ISOY800102 Conformation β-strand Extended Normalized rela...i et al., 1980) 0.126000 0.079975 -0.079975 0.169167 0.182954 0.000926 0.002636 5,6 1.002000 1.075427

Feature sets are made available for datasets that have been rigorously tested and documented through scientific research.