TABLES COMMONLY USED IN BIOINFORMATICS


TABLE 1. Property and conventions associated with Amino Acids found in Proteins

DownloadTo view amino acid chemical structure pass mouse over its code (first column)
1L Code 3L Code Name PM(Kda) Type Charge O/D Prom. Preferences pI
A Ala Alanine 89 Hydrophobic No Disorder Helix 6,11
C Cys Cisteine 121 Hydrophilic No Order Strand 5,05
D Asp Aspartic acid 133 Hydrophilic ( - ) Order Coil 2,85
E Glu Glutamic acid 147 Hydrophilic ( - ) Disorder Helix 3,15
F Phe Phenylalanine 165 Hydrophobic No Order Strand 5,49
G Gly Glycine 75 Hydrophilic No Disorder Coil 6,06
H His Histidine 155 Hydrophilic ( + ) Order Helix 7,60
I Ile Isoleucine 131 Hydrophobic No Order Strand 6,05
K Lys Lysine 146 Hydrophilic ( + ) Disorder Helix 9,60
L Leu Leucine 131 Hydrophobic No Order Helix 6,01
M Met Methionine 149 Hydrophobic No Order Helix 5,74
N Asn Asparagine 132 Hydrophilic No Order Coil 5,41
P Pro Proline 115 Hydrophobic No Disorder Coil 6,30
Q Gln Glutamine 146 Hydrophilic No Disorder Helix 5,65
R Arg Arginine 174 Hydrophilic ( + ) Disorder Helix 10,76
S Ser Serine 105 Hydrophilic No Disorder Coil 5,68
T Thr Threonine 119 Hydrophilic No Order Strand 5,60
V Val Valine 117 Hydrophobic No Order Strand 6,00
W Trp Tryptophan 204 Hydrophobic No Order Strand 5,89
Y Tyr Tyrosine 181 Hydrophilic No Order Strand 5,64

Legenda:

1L/3L = Amino Acid Code
Name = Amino Acid Name
PM = Molecular Weight in KDalton
Type = Physical
Charge = Electric Charge
O/D Promoting = Amino Acid Order/Disorder Promoting inside the Proteins
Preferences = Conformational Preferences
pI = PH Value for which the molecule not shows net charge



TABLE 2. Secondary Structures Type in Proteins
Secondary Structure Simbol
Alpha Helix H
3.10 Helix G
pi Helix (extremely rare) I
Beta Bridge B
Extended Beta Strand E
Beta Turn T
Random Coil C

Legenda:

Nomenclatura e abbreviazioni standard degli elementi di struttura secondaria da Kabsch and Sander (1983) Biopolymers

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