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Table 1 Full list of the 80 biochemical properties used in the FEATURE program

From: 3D deep convolutional neural networks for amino acid environment similarity analysis

1 ATOM_TYPE_IS_C 41 RESIDUE_NAME_IS_GLU
2 ATOM_TYPE_IS_CT 42 RESIDUE_NAME_IS_GLY
3 ATOM_TYPE_IS_CA 43 RESIDUE_NAME_IS_HIS
4 ATOM_TYPE_IS_N 44 RESIDUE_NAME_IS_ILE
5 ATOM_TYPE_IS_N2 45 RESIDUE_NAME_IS_LEU
6 ATOM_TYPE_IS_N3 46 RESIDUE_NAME_IS_LYS
7 ATOM_TYPE_IS_NA 47 RESIDUE_NAME_IS_MET
8 ATOM_TYPE_IS_O 48 RESIDUE_NAME_IS_PHE
9 ATOM_TYPE_IS_O2 49 RESIDUE_NAME_IS_PRO
10 ATOM_TYPE_IS_OH 50 RESIDUE_NAME_IS_SER
11 ATOM_TYPE_IS_S 51 RESIDUE_NAME_IS_THR
12 ATOM_TYPE_IS_SH 52 RESIDUE_NAME_IS_TRP
13 ATOM_TYPE_IS_OTHER 53 RESIDUE_NAME_IS_TYR
14 PARTIAL_CHARGE 54 RESIDUE_NAME_IS_VAL
15 ELEMENT_IS_ANY 55 RESIDUE_NAME_IS_HOH
16 ELEMENT_IS_C 56 RESIDUE_NAME_IS_OTHER
17 ELEMENT_IS_N 57 RESIDUE_CLASS1_IS_HYDROPHOBIC
18 ELEMENT_IS_O 58 RESIDUE_CLASS1_IS_CHARGED
19 ELEMENT_IS_S 59 RESIDUE_CLASS1_IS_POLAR
20 ELEMENT_IS_OTHER 60 RESIDUE_CLASS1_IS_UNKNOWN
21 HYDROXYL 61 RESIDUE_CLASS2_IS_NONPOLAR
22 AMIDE 62 RESIDUE_CLASS2_IS_POLAR
23 AMINE 63 RESIDUE_CLASS2_IS_BASIC
24 CARBONYL 64 RESIDUE_CLASS2_IS_ACIDIC
25 RING_SYSTEM 65 RESIDUE_CLASS2_IS_UNKNOWN
26 PEPTIDE 66 SECONDARY_STRUCTURE1_IS_3HELIX
27 VDW_VOLUME 67 SECONDARY_STRUCTURE1_IS_4HELIX
28 CHARGE 68 SECONDARY_STRUCTURE1_IS_5HELIX
29 NEG_CHARGE 69 SECONDARY_STRUCTURE1_IS_BRIDGE
30 POS_CHARGE 70 SECONDARY_STRUCTURE1_IS_STRAND
31 CHARGE_WITH_HIS 71 SECONDARY_STRUCTURE1_IS_TURN
32 HYDROPHOBICITY 72 SECONDARY_STRUCTURE1_IS_BEND
33 MOBILITY 73 SECONDARY_STRUCTURE1_IS_COIL
34 SOLVENT_ACCESSIBILITY 74 SECONDARY_STRUCTURE1_IS_HET
35 RESIDUE_NAME_IS_ALA 75 SECONDARY_STRUCTURE1_IS_UNKNOWN
36 RESIDUE_NAME_IS_ARG 76 SECONDARY_STRUCTURE2_IS_HELIX
37 RESIDUE_NAME_IS_ASN 77 SECONDARY_STRUCTURE2_IS_BETA
38 RESIDUE_NAME_IS_ASP 78 SECONDARY_STRUCTURE2_IS_COIL
39 RESIDUE_NAME_IS_CYS 79 SECONDARY_STRUCTURE2_IS_HET
40 RESIDUE_NAME_IS_GLN 80 SECONDARY_STRUCTURE2_IS_UNKNOWN
  1. Description of each property can be found in [63]