The 20 Amino Acids
(Jmol version)


The 20 Amino Acids

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Amino Acid Properties (1)
Amino Acid Molecular Formula Hydropathy Index  log P  Acidic/Neutral/Basic Polar/Hydrophobic pI
Arg R Arginine H2N(=NH)NHC3H6CCH(NH2)COOH -4.5 -4.20 Acidic Polar (Basic) 10.76
Lys K Lysine H2N(CH2)4CH(NH2)COOH -3.9 -3.05 Basic Polar (Basic) 9.74
Asp D Aspartic Acid HOOCCH2CH(NH2)COOH -3.5 -3.89 Acidic Polar (Acidic) 2.77
Asn N Asparagine H2NCOCH2CH(NH2)COOH -3.5 -3.82 Neutral Polar (Neutral) 5.41
Glu E Glutamic Acid HOOCCH2CH2CH(NH2)COOH -3.5 -3.69 Acidic Polar (Acidic) 3.22
Gln Q Glutamine H2NCO-CH2CH2CH(NH2)COOH -3.5 -3.64 Neutral Polar (Neutral) 5.65
His H Histidine H2NCH[CH2(C3H3N2)]COOH -3.2 -3.32 Basic Polar (Basic) 7.59
Pro P Proline (C4H8N)-COOH -1.6 -2.54 Neutral Nonpolar (Hydrophobic) 6.30
Tyr Y Tyrosine HO(C6H4)CH2CH(NH2)COOH -1.3 -2.26 Neutral Polar (Neutral) 5.66
Trp W Tryptophan (C8H6N)-CH2CH(NH2)COOH -0.9 -1.05 Neutral Nonpolar (Hydrophobic) 5.89
Ser S Serine HOCH2CH(NH2)COOH -0.8 -3.07 Neutral Polar (Neutral) 5.68
Thr T Threonine CH3CH(OH)CH(NH2)COOH -0.7 -2.94 Neutral Polar (Neutral) 6.16
Gly G Glycine H2NCH2COOH -0.4 -3.21 Neutral Nonpolar (Hydrophobic) 5.97
Ala A Alanine CH3CH(NH2)COOH 1.8 -2.85 Neutral Nonpolar (Hydrophobic) 6.00
Met M Methionine CH3SCH2CH2CH(NH2)COOH 1.9 -1.87 Neutral Nonpolar (Hydrophobic) 5.74
Cys C Cysteine HSCH2CH(NH2)COOH 2.5 -2.49 Neutral Polar (Neutral) 5.07
Phe F Phenylalanine (C6H5)CH2CH(NH2)COOH 2.8 -1.38 Neutral Nonpolar (Hydrophobic) 5.48
Leu L Leucine (CH3)2CHCH2CH(NH2)COOH 3.8 -1.52 Neutral Nonpolar (Hydrophobic) 5.98
Val V Valine (CH3)2CHCH(NH2)COOH 4.2 -2.26 Neutral Nonpolar (Hydrophobic) 5.96
Ile I Isoleucine C2H5CH(CH3)CH(NH2)COOH 4.5 -1.70 Neutral Nonpolar (Hydrophobic) 6.02
# hydropathy index; Kyte and Doolittle, J. Mol. Biol., 157, 105-132(1982)
# log P;
On-Line Log P Calculation


Amino Acid Properties (2)
Amino Acid hydropathy
index
Side-chain R log P Acidic/Neutral/Basic pI
O I I/O *
Ile I Isoleucine 4.5 80 0 0 -1.70 Neutral 6.02
Leu L Leucine 3.8 70 0 0 -1.52 Neutral 5.98
Val V Valine 4.2 50 0 0 -2.26 Neutral 5.96
Ala A Alanine 1.8 20 0 0 -2.85 Neutral 6.00
Phe F Phenylalanine 2.8 140 15 0.107 -1.38 Neutral 5.48
Pro P Proline -1.6 60 10 0.167 -2.54 Neutral 6.30
Met M Methionine 1.9 100 20 0.200 -1.87 Neutral 5.74
Cys C Cysteine 2.5 60 20 0.333 -2.49 Neutral 5.07
Trp W Tryptophan -0.9 180 130 0.722 -1.05 Neutral 5.89
Tyr Y Tyrosine -1.3 140 115 0.821 -2.26 Neutral 5.66
Lys K Lysine -3.9 80 70 0.875 -3.05 Basic 9.74
Gly G Glycine -0.4 0 0 - -3.21 Neutral 5.97
His H Histidine -3.2 80 152 1.900 -3.32 Basic 7.59
Arg R Arginine -4.5 80 190 2.375 -4.20 Positive 10.76
Thr T Threonine -0.7 40 100 2.500 -2.94 Neutral 6.16
Glu E Glutamic Acid -3.5 60 150 2.500 -3.69 Acidic 3.22
Gln Q Glutamine -3.5 60 200 3.333 -3.64 Neutral 5.65
Asp D Aspartic Acid -3.5 40 150 3.750 -3.89 Acidic 2.77
Ser S Serine -0.8 20 100 5.000 -3.07 Neutral 5.68
Asn N Asparagine -3.5 40 200 5.000 -3.82 Neutral 5.41
*
Formulation Design with Organic Conceptual Diagram - NIHON EMULSION CO., LTD [PDF]

  
GPCR [Japanese]


Metarhodopsin II (PDB 3PQR) [Japanese] - Kawakami Model

New Model Gives Hands-On Help for Learning the Secrets of Molecules (AIP)


Conformational Preferences of the Amino Acids
Williams, R.W. et al. : Biochim. Biophys. Acta , 916, 200-204 (1987).
"From Sequence to Structure" [PDF], p.18
  α-helix β-strand
Glu 1.59 0.52
Ala 1.41 0.72
Leu 1.34 1.22
Met 1.30 1.14
Gln 1.27 0.98
Lys 1.23 0.69
Arg 1.21 0.84
His 1.05 0.80
Val 0.90 1.87
Ile 1.09 1.67
Tyr 0.74 1.45
Cys 0.66 1.40
Trp 1.02 1.35
Phe 1.16 1.33
Thr 0.76 1.17
Gly 0.43 0.58
Asn 0.76 0.48
Pro 0.34 0.31
Ser 0.57 0.96
Asp 0.99 0.39


PDB 1c9e


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